Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1862
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: 108184
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Found at i:105 original size:20 final size:20
Alignment explanation
Indices: 77--151 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
67 TCATACCCTG
77 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
97 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
117 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
137 ATGTATCGATACATT
1 ATGTATCGATACATT
152 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:144 original size:40 final size:39
Alignment explanation
Indices: 77--154 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
67 TCATACCCTG
* *
77 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
117 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
155 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:14171 original size:10 final size:10
Alignment explanation
Indices: 14156--14224 Score: 77
Period size: 10 Copynumber: 6.6 Consensus size: 10
14146 TTTACACCCA
14156 AAAAAAAAAC
1 AAAAAAAAAC
14166 -AAAAAAAAC
1 AAAAAAAAAC
14175 AAAAAAAAAC
1 AAAAAAAAAC
14185 AAAACAAAAAAAC
1 --AA-AAAAAAAC
*
14198 AAAAAAAAAG
1 AAAAAAAAAC
*
14208 AAAAAAATAGC
1 AAAAAAA-AAC
14219 AAAAAA
1 AAAAAA
14225 TAGAAGGGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.18
10 23 0.45
11 9 0.18
12 2 0.04
13 8 0.16
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:14180 original size:19 final size:19
Alignment explanation
Indices: 14156--14224 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 19
14146 TTTACACCCA
14156 AAAAAAAAACAAAAAAAAC
1 AAAAAAAAACAAAAAAAAC
14175 AAAAAAAAACAAAACAAAAAAAC
1 AAAAAAAAAC---A-AAAAAAAC
*
14198 AAAAAAAAAGAAAAAAATAGC
1 AAAAAAAAACAAAAAAA-A-C
14219 AAAAAA
1 AAAAAA
14225 TAGAAGGGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
19 16 0.37
20 2 0.05
21 7 0.16
22 1 0.02
23 17 0.40
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (19 bp):
AAAAAAAAACAAAAAAAAC
Found at i:14182 original size:24 final size:23
Alignment explanation
Indices: 14155--14212 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 23
14145 CTTTACACCC
14155 AAAAAAAAAACAAAAAAAACAAAA
1 AAAAAAAAAAC-AAAAAAACAAAA
*
14179 AAAAACAAAACAAAAAAACAAAA
1 AAAAAAAAAACAAAAAAACAAAA
14202 AAAAAGAAAAA
1 AAAAA-AAAAA
14213 AATAGCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 17 0.55
24 14 0.45
ACGTcount: A:0.90, C:0.09, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAACAAAAAAACAAAA
Found at i:14224 original size:1 final size:1
Alignment explanation
Indices: 14155--14214 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
14145 CTTTACACCC
* * * * * *
14155 AAAAAAAAAACAAAAAAAACAAAAAAAAACAAAACAAAAAAACAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14215 TAGCAAAAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:15573 original size:28 final size:28
Alignment explanation
Indices: 15444--16884 Score: 1388
Period size: 28 Copynumber: 49.2 Consensus size: 28
15434 TGTTCATCCC
* *
15444 TTTCAAAGCCCAAAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
* *
15473 TTTCAAAGCCCATAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
*
15502 TTTCAAAGCCCACGAGTCAGTGGCACC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
15529 TTTC-AAGCCCACGAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
15556 TTTCAAAGCCCACGAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
15583 CTTTCAAAGCCCACAAGTCAGTGGCATCT
1 -TTTCAAAGCCCACAAGTCAGTGGCACCT
*
15612 TTTCAAAGCCCACGCAAGTTAGTGGCACCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCT
* *
15642 TTTTAAAGCCCACGCAAGTCAGTGGCACTT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCT
*
15672 TTTCAAAGCCCACGAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
15700 TTTACAAAGCCCACGAGTCAGTGGCACTCT
1 TTT-CAAAGCCCACAAGTCAGTGGCAC-CT
*
15730 TTT-AAAGCCCACGAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
15756 CTTTCAAAGCCCACAAGTCAGTGGCATCC-
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCT
*
15785 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
15813 TTCCAAAGCCCACACAAGTCAGTGGCACTCCT
1 TTTCAAAG-CC-CACAAGTCAGTGGCA--CCT
* *
15845 TTT-AGAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
15872 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
15900 TTGCGAAGCCCACAATTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
15927 CTTTCAAAGCCCACAAGTTAGTGGCACCT
1 -TTTCAAAGCCCACAAGTCAGTGGCACCT
*
15956 TTTTAAAGCCCACGCAAGTCAGTGGCACCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCT
*
15986 TTTCAAAGCCCACGAGTCAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACC-T
* *
16015 TTTCAAAGCCCACGAGTCAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
16043 TTTTAAAGCCCACGAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
16070 CTTTCAAAGCCCACAAGTCAGTGGCATCC-
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCT
*
16099 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
16127 TTTCAAAGCCCACACAAGTCAGTGGCACTCCT
1 TTTCAAAG-CC-CACAAGTCAGTGGCA--CCT
* * *
16159 TTT-AGAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
16186 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
16214 TTGCGAAGCCCACAATTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
16241 CTTTCAAAGCCCACAAGTTAGTGGCACCT
1 -TTTCAAAGCCCACAAGTCAGTGGCACCT
*
16270 TTTTAAAGCCCACGCAAGTCAGTGGCACCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACCT
* *
16300 TTTCAAAGCCCACGAGTCAATGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACC-T
*
16329 TTTCAAAGCCCACGAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CT
*
16358 TTT-AAAGCCCACGAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
16384 CTTTCAAAGCCCACAAGTCAGTGGCATCC-
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCT
*
16413 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
16441 TTTCAAAGCCCACACAAGTCAGCGGCACTCCT
1 TTTCAAAG-CC-CACAAGTCAGTGGCA--CCT
*
16473 TTT-AAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
16500 TTTCAAATCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAA-GCC-CACAAGTCAGTGGC-A-CCT
* *
16532 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCT
* *
16564 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCT
* * *
16596 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCT
* * *
16628 TTCCAAAGCCCACATAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCAC--AAGTCAGTGGC-A-CCT
* *
16660 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCT
* *
16692 TTTCAAAGCCCACACAAGTCCGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCT
* * *
16724 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCT
*
16756 TTTCAAAGCCCACACAAGTCAGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCT
* * *
16788 TTTCAAAGCCCACGAGTTAGTGGCA-TT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
16815 CTTTCAAAGCCCATGCATGTCAGTGGCACCCT
1 -TTTCAAAGCCCA--CAAGTCAGTGGCA-CCT
*
16847 TTT-AAAGCCCATGCAAGTCAATGGCAACCCT
1 TTTCAAAGCCCA--CAAGTCAGTGGC-A-CCT
16878 TTTCAAA
1 TTTCAAA
16885 TCACCACTGT
Statistics
Matches: 1263, Mismatches: 85, Indels: 125
0.86 0.06 0.08
Matches are distributed among these distances:
26 26 0.02
27 40 0.03
28 497 0.39
29 187 0.15
30 221 0.17
31 26 0.02
32 261 0.21
33 2 0.00
34 3 0.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:15922 original size:171 final size:170
Alignment explanation
Indices: 15441--16884 Score: 1537
Period size: 171 Copynumber: 8.2 Consensus size: 170
15431 GAATGTTCAT
* * *
15441 CCCTTTCAAAGCCCAAAAGTCAGTGGCACTCCTTTCAAAGCCCATA-AA-TCAGTGGCACTCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTT
* * *
15504 TCAAAGCCCACGAGTCAGTGGCA-CCTTTC-AAGCCCACGAGTCAGTGGCACCTTTTCAAAGCCC
65 T-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
*
15567 ACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
129 ACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * * *
15609 TCTTTTCAAAGCCCACGCAAGTTAGTGGCACCTTTTTAAAGCCCACGCAAGTCAGTGGCA-CTTT
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTT
* * * * *
15673 TTCAAAGCCCACGAGTCAGTGGCACCTTTTACAAAGCCCACGAGTCAGTGGCACTCTTTTAAAGC
64 TT-AAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
15738 CCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
127 CCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
* *
15782 TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACACAAGTCAGTGGCACTCCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAC-CCTTT
* * *
15847 TAGAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTGCGAAGCCCA
65 TAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* *
15912 CAATTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCA
130 CAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
15953 CCTTTTTAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAG-CC-CACGAGTCAGTGGCACCTTT
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTT
* ** * * *
16016 TTCAAAGCCCACGAGTCAGTGGCACTTTTTTAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCC
64 TT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
16081 CACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCA
128 CACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCA
* * *
16124 CCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTTAGAG-CC-CACAAGTTAGTGGCACCCT
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACACAAGTCAGTGGCACCCT
* * * * *
16187 TTCAAAGCCCACAAGTCAGTGGCACCCTTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGCC
63 TTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* *
16252 CACAAGTTAGTGGCAC-CTTTTTAAAGCCCACGCAAGTCAGTGGCA
128 CACAAGTCAGTGGCACTC-TTTCAAAGCCCA--CAAGTCAGTGGCA
* * * * * *
16297 CCTTTTCAAAGCCCACGAGTCAATGGCACCTTTTTCAAAG-CC-CACGAGTCAGTGGCACTCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACC-CTTTCAAAGCCCACACAAGTCAGTGGCACCCTTT
* * *
16360 TAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCA
65 TAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* *
16425 CAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGCGGCA
130 CAAGTCAGTGGCACTCTTTCAAAG-CC-CACAAGTCAGTGGCA
* * *
16468 CTCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAATCCCACACAAGTCGGTGGCAACCCAT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGC-ACCC-T
* * *
16533 TTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATT
63 TTTAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TT
* * * * *
16598 CCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACATAAGTCGGTGGCAA
120 TCAAAG-CC-CACAAGTCAGTGGC-ACTC-TTTCAAAGCCCAC--AAGTCAGTGGC-A
* *
16656 CCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCCGTGGCAAC
1 CCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCCCACACAAGTCAGTGGC-AC
** *
16721 CCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAACC
60 CC-TTTTAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACC
* * * *
16786 CATTTCAAAGCCCACGAGTTAGTGGCATTCTTTCAAAGCCCATGCATGTCAGTGGCA
117 C-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
16843 CCCTTTTAAAGCCCATGCAAGTCAATGGCAACCCTTTTCAAA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGC-ACCC-TTTCAAA
16885 TCACCACTGT
Statistics
Matches: 1095, Mismatches: 128, Indels: 88
0.84 0.10 0.07
Matches are distributed among these distances:
168 13 0.01
169 12 0.01
170 48 0.04
171 479 0.44
172 88 0.08
173 153 0.14
174 3 0.00
175 7 0.01
176 2 0.00
177 12 0.01
178 3 0.00
179 8 0.01
180 2 0.00
181 13 0.01
182 3 0.00
183 7 0.01
184 4 0.00
185 18 0.02
186 35 0.03
187 22 0.02
188 29 0.03
189 4 0.00
190 25 0.02
191 6 0.01
192 99 0.09
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (170 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTT
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
AAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:16024 original size:314 final size:315
Alignment explanation
Indices: 15443--16878 Score: 1886
Period size: 314 Copynumber: 4.5 Consensus size: 315
15433 ATGTTCATCC
* * * *
15443 CTTTCAAAGCCCAAAAGTCAGTGGCACTCCTTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAA
* * * *
15508 AG-CC-CACGAGTCAGTGGCA--CC-TTTCAAGCCCACGAGTCAGTGGCACCTTTTCAAAGCCCA
64 AGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA
* * * *
15568 CGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACGCAAGTT
129 CAAGTCAGTGGCACCCTTGCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCA--CAAGTT
*
15632 AGTGGCACCTTTTTAAAGCCCACGCAAGTCAGTGGCACTTTTTCAAAGCCCACGAGTCAGTGGCA
192 AGTGGCACCTTTTTAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCA
*
15697 CCTTTTACAAAGCCCACGAGTCAGTGGCACTCTTTTAAAGCCCACGAGTCAGTGGCACT
257 CCTTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTTAAAGCCCACGAGTCAGTGGCACT
*
15756 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
15821 CCCACACAAGTCAGTGGCACTCCTTTTAGAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
66 CCCACACAAGTCAGTGGCACTCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
* *
15886 AGTCAGTGGCACCCTTGCGAAGCCCACAATTCAGTGGCACTC-TTTCAAAGCCCACAAGTTAGTG
131 AGTCAGTGGCACCCTTGCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTTAGTG
15950 GCACCTTTTTAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCTT
196 GCACCTTTTTAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCTT
*
16015 TTTCAAAGCCCACGAGTCAGTGGCACTTTTTTAAAGCCCACGAGTCAGTGGCACT
261 TTTCAAAGCCCACGAGTCAGTGGCACTCTTTTAAAGCCCACGAGTCAGTGGCACT
16070 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
16135 CCCACACAAGTCAGTGGCACTCCTTTTAGAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACA
66 CCCACACAAGTCAGTGGCACTCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
* *
16200 AGTCAGTGGCACCCTTGCGAAGCCCACAATTCAGTGGCACTC-TTTCAAAGCCCACAAGTTAGTG
131 AGTCAGTGGCACCCTTGCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTTAGTG
*
16264 GCACCTTTTTAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAATGGCACCTT
196 GCACCTTTTTAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCTT
16329 TTTCAAAGCCCACGAGTCAGTGGCACTCTTTTAAAGCCCACGAGTCAGTGGCACT
261 TTTCAAAGCCCACGAGTCAGTGGCACTCTTTTAAAGCCCACGAGTCAGTGGCACT
16384 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
16449 CCCACACAAGTCAGCGGCACTCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAATCCCACA
66 CCCACACAAGTCAGTGGCACTCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAA-GCC-CA
* * * *
16514 CAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAC
129 CAAGTCAGTGGC-ACCC-TTGCAAAG-CC-CACAAGTCAGTGGC-ACTCATTTCAAAG-CC-CAC
** * ** * * * * *
16579 AAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACATA
187 AAGTTAGTGGC-A-CCTTTTTAAAGCCCACGCAAGTCAGTGGC-A-CCTTTTCAAAGCCCAC--G
* ** * * * * *
16644 AGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAA
246 AGTCAGTGGC-ACCTTTTTCAAAG-CC-CACGAGTCAGTGGC-ACTC-TTTTAAAG-CC-CACGA
* *
16709 GTCCGTGGCAACC
304 GTCAGTGGC-ACT
* * *
16722 CATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAACCC
1 C-TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC
* * * * *
16787 ATTTCAAAG-CC-CACGAGTTAGTGGCA-TTCTTTCAAAGCCCATGCATGTCAGTGGCACCCTTT
58 -TTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCCCA--CAAGTCAGTGGCACCCTTT
* *
16849 TAAAGCCCATGCAAGTCAATGGCAACCCTT
120 CAAAGCCCA--CAAGTCAGTGGC-ACCCTT
16879 TTCAAATCAC
Statistics
Matches: 1014, Mismatches: 66, Indels: 54
0.89 0.06 0.05
Matches are distributed among these distances:
311 8 0.01
312 29 0.03
313 39 0.04
314 557 0.55
315 4 0.00
316 96 0.09
317 6 0.01
318 6 0.01
319 2 0.00
320 12 0.01
321 3 0.00
322 8 0.01
323 2 0.00
324 12 0.01
325 1 0.00
326 24 0.02
327 1 0.00
328 14 0.01
330 8 0.01
331 11 0.01
332 2 0.00
333 12 0.01
334 3 0.00
335 7 0.01
336 2 0.00
337 12 0.01
338 3 0.00
339 7 0.01
340 2 0.00
341 13 0.01
342 3 0.00
343 8 0.01
344 17 0.02
345 30 0.03
346 42 0.04
347 8 0.01
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (315 bp):
CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACACAAGTCAGTGGCACTCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
AGTCAGTGGCACCCTTGCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTTAGTG
GCACCTTTTTAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCTT
TTTCAAAGCCCACGAGTCAGTGGCACTCTTTTAAAGCCCACGAGTCAGTGGCACT
Found at i:16884 original size:314 final size:282
Alignment explanation
Indices: 15444--16884 Score: 1543
Period size: 286 Copynumber: 4.9 Consensus size: 282
15434 TGTTCATCCC
** * * *
15444 TTTCAAAGCCCAAAAGTCAGTGGCACTCC-TTTCAAAGCCCATAAATCAGTGGCACTCTTTTCAA
1 TTTCAAAGCCCACGAGTCAGTGGCAC-CCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAA
* * * *
15508 AGCCCACGAGTCAGTGGCA-CCTTTC-AAGCCCACGAGTCAGTGGCACCTTTTCAAAGCCCACGA
64 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * *
15571 GTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACGCAAGTTAGTG
129 GTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTTAGTG
* * *
15636 GCAC-CTTTTTAAAGCCCACGCAAGTCAGTGGCA-CTTTTTCAAAGCCCACGAGTCAGTGGCACC
192 GCACTC-TTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACC
* *
15699 TTTTACAAAGCCCACGAGTCAGTGGCACTCT
253 TTTT-CAAAGCCCACAAGTCAGTGGCACCCT
* *
15730 TTT-AAAGCCCACGAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCACGAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
15793 CCCACAAGTCAGTGGCACCCTTCCAAAGCCCACACAAGTCAGTGGCACTCCTTTTAGAGCCCACA
66 CCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA
* *
15858 AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTGCGAAGCCCACAA-TTCAGTG
128 AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTT-AGTG
* *
15922 GCACTCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTTAAAGCCCACGCAAGTCAGTGGCACCTT
192 GCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCA--CAAGTCAGTGGCACCTT
* *
15987 TTCAAAGCCCACGAGTCAGTGGCACCTT
255 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
16015 TTTCAAAGCCCACGAGTCAGTGGCA-CTTTTTTAAAGCCCACGAGTCAGTGGCACTCTTTCAAAG
1 TTTCAAAGCCCACGAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
16079 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAA
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAA
* * * *
16144 GTCAGTGGCACTCCTTTTAGAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG
129 GTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGG
* * * * * * * *
16209 CACCCTTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTT
193 CACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCTTTTC
16274 AAAGCCCACGCAAGTCAGTGGCA-CCT
258 AAAGCCCA--CAAGTCAGTGGCACCCT
* * * * *
16300 TTTCAAAGCCCACGAGTCAATGGCACCTTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTTAAAG
1 TTTCAAAGCCCACGAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
16365 CCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
* * *
16430 CAGTGGCACCCTTTCAAAGCCCACACAAGTCAGCGGCACTCCTTTTAAAGCCCACAAGTCAGTGG
131 CAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGG
* * * * *
16495 CACCCTTTCAAATCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAA
193 CACTCTTTCAAA-GCC-CACAAGTCAGTGGC-ACCC-TTTTAAAG-CC-CACAAGTCAGTGGC-A
* * *
16560 CCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
251 -CCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACCCT
* * * * * *
16596 TTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACATAAGTCGGTGGCAACCCAT
1 TTTCAAAG-CC-CACGAGTCAGTGGC-ACCCTTTTCAAAGCCCAC--AAGTCAGTGGC-ACCC-T
* *
16661 TTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCCGTGGCAACCCATT
59 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TT
* *
16726 CCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAACCCATTT
116 TCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTT
* * *
16791 CAAAGCCCACGAGTTAGTGGCATTCTTTCAAAGCCCATGCATGTCAGTGGCACCCTTTTAAAGCC
173 CAAAGCCCACAAGTTAGTGGCACTCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTTAAAGCC
*
16856 CATGCAAGTCAATGGCAACCCTTTTCAAA
236 CA--CAAGTCAGTGGC-A-CCTTTTCAAA
16885 TCACCACTGT
Statistics
Matches: 989, Mismatches: 107, Indels: 90
0.83 0.09 0.08
Matches are distributed among these distances:
283 41 0.04
284 111 0.11
285 118 0.12
286 341 0.34
287 19 0.02
288 73 0.07
289 3 0.00
290 8 0.01
291 2 0.00
292 12 0.01
293 1 0.00
294 20 0.02
295 3 0.00
296 11 0.01
297 2 0.00
298 11 0.01
299 15 0.02
301 9 0.01
302 3 0.00
303 7 0.01
304 2 0.00
305 12 0.01
306 3 0.00
307 8 0.01
308 2 0.00
309 13 0.01
310 3 0.00
311 7 0.01
312 4 0.00
313 15 0.02
314 35 0.04
315 33 0.03
316 42 0.04
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (282 bp):
TTTCAAAGCCCACGAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAC
TCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCTTTTCAAA
GCCCACAAGTCAGTGGCACCCT
Found at i:20782 original size:20 final size:20
Alignment explanation
Indices: 20754--20828 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
20744 TCATACCCTG
20754 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
20774 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
20794 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
20814 ATGTATCGATACATT
1 ATGTATCGATACATT
20829 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:20821 original size:40 final size:39
Alignment explanation
Indices: 20754--20831 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
20744 TCATACCCTG
* *
20754 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
20794 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
20832 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:28162 original size:173 final size:170
Alignment explanation
Indices: 27724--28415 Score: 812
Period size: 173 Copynumber: 4.0 Consensus size: 170
27714 ACACCTTTTC
* * *
27724 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
* * * *
27789 CCACATAAGTTGGTGGCAATTTTTTAGTCCTCAAAGAGCAGGTCG-C---CTTTTAAAGCCCACA
66 CCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACA
**
27850 CAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
131 CAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACG-----T
* * * *
27896 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-AGTCTTCAAAGAGCAGGACGCTTTCGCCTT
1 -CTTTCAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGA------CGCCTT
27960 TCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTA
59 TCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCC-TTTC-TTTTA
28025 AAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGT
122 AAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGT
* * * * *
28074 CTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTTAGTCCTCAAAGAGCAGGTCGCCTTTTAAAG
1 CTTTCAAAGCCCACACAAGTTGGTGGC-ATCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
*
28139 CCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCC
65 CCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTT-AAAGCCC
* * *
28204 ACACGAGTTGGTGGCACCTTTCAGTTCTCAAAGAGCAGGACGC
128 ACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGT
28247 CTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCATC-TTT-CAGTCCTCAAAGAGCAGGACG-C----C-T
* * *
28311 TTCAAAGCCCACACGAGTTGGTGGCAC-CTTTCAGTTCTCAAAGAGCAGGACGCCTTTC----AA
58 TTCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAA
* * * *
28371 AGCCCCCACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
123 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
28416 TACACTTTAT
Statistics
Matches: 462, Mismatches: 34, Indels: 47
0.85 0.06 0.09
Matches are distributed among these distances:
172 68 0.15
173 187 0.40
174 1 0.00
177 28 0.06
178 83 0.18
179 43 0.09
183 21 0.05
184 31 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (170 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGC
CCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACA
CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGT
Found at i:28194 original size:117 final size:115
Alignment explanation
Indices: 27693--28415 Score: 894
Period size: 117 Copynumber: 6.2 Consensus size: 115
27683 CCTTTCACCC
* *
27693 TTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
27758 AGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACATAAGTTGGTGGCAATT
65 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC-ACT
* **
27810 TTTTAGTCCTCAAAGAGCAGGTCGCC---T-TTT-AAAGCCCACACAAGTTGGTGGCATTTTTCT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-
*
27870 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCAC-
65 AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACT
* * * *
27926 CTTTAGTCTTCAAAGAGCAGGACG-CTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTT--TCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTT
*
27990 TCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
63 TCAGTCCTCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCACT
* * ** *
28049 TTTCAGTCCTCAAAGAGCAGGACG-----TCTTTCAAAGCCCACATAAGTTGGTGGCAATTTTTT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGC-ACCTTTC
* *
28109 AGTCCTCAAAGAGCAGGTCGCCTTTTAAAGCCCACACAAGTTGGTGGCACT
65 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
28160 TTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 TTTT-AGTCCTCAAAGAGCAGGACGCCTTTTC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTT
*
28225 CAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
64 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
28277 TTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 TTT-TAGTCCTCAAAGAGCAGGACGCCTTTTC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
28342 CAGTTCTCAAAGAGCAGGACGCCTTTCAAAGCCCCCACGAGTTGGTGGCACT
64 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
28394 TTTTAGTCCTCAAAGAGCAGGA
1 TTTTAGTCCTCAAAGAGCAGGA
28416 TACACTTTAT
Statistics
Matches: 541, Mismatches: 39, Indels: 53
0.85 0.06 0.08
Matches are distributed among these distances:
111 54 0.10
112 43 0.08
113 3 0.01
114 2 0.00
115 1 0.00
116 42 0.08
117 245 0.45
118 45 0.08
121 4 0.01
122 76 0.14
123 26 0.05
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (115 bp):
TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:29046 original size:6 final size:6
Alignment explanation
Indices: 29037--29063 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
29027 TAAAAATTAA
29037 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
29064 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:29205 original size:26 final size:26
Alignment explanation
Indices: 29176--29267 Score: 148
Period size: 26 Copynumber: 3.5 Consensus size: 26
29166 GAAAATTCGA
*
29176 ACAGTATGGGAAAGGAAATAGAAAAT
1 ACAGCATGGGAAAGGAAATAGAAAAT
29202 ACAGCATGGGAAAGGAAATAGAAAAT
1 ACAGCATGGGAAAGGAAATAGAAAAT
**
29228 GTAGCATGGGAAAGGAAATAGAAAAT
1 ACAGCATGGGAAAGGAAATAGAAAAT
*
29254 GCAGCATGGGAAAG
1 ACAGCATGGGAAAG
29268 CATAAAAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.50, C:0.07, G:0.30, T:0.13
Consensus pattern (26 bp):
ACAGCATGGGAAAGGAAATAGAAAAT
Found at i:29319 original size:50 final size:50
Alignment explanation
Indices: 29257--29409 Score: 288
Period size: 50 Copynumber: 3.1 Consensus size: 50
29247 AGAAAATGCA
29257 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCAT
1 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCAT
*
29307 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATACAGAGGCAT
1 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCAT
*
29357 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACAAGCAGAGGCAT
1 GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCAT
29407 GCA
1 GCA
29410 AGAGAATGGA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 100 1.00
ACGTcount: A:0.45, C:0.14, G:0.25, T:0.15
Consensus pattern (50 bp):
GCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAGGCAT
Found at i:29794 original size:55 final size:55
Alignment explanation
Indices: 29685--29874 Score: 163
Period size: 55 Copynumber: 3.7 Consensus size: 55
29675 ACGACTCCAA
* * * * * * ** *
29685 CACGCAAAAGCAGCTCCAGCAGCAGCACCAGCTCTAGCGGCGGCAACAGTTCTAG
1 CACGCAAAAGCAGCTCCAACAGCAGCAGCAACTCCAGCAGCGACTGCAGCTCTAG
* *
29740 CACGCAAAAGTAGCTCCAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCTAG
1 CACGCAAAAGCAGCTCCAACAGCAGCAGCAACTCCAGCAGCGACTGCAGCTCTAG
*
29795 CACGC---A--A----C-A-A-CAGCAGCAACTCCAGCAGCGACTGCAGCTCCAG
1 CACGCAAAAGCAGCTCCAACAGCAGCAGCAACTCCAGCAGCGACTGCAGCTCTAG
*
29838 CACGCAACAGCAGCTCCAACGAG-AGCAGCAACTCCAG
1 CACGCAAAAGCAGCTCCAAC-AGCAGCAGCAACTCCAG
29875 TAGGTAGCAA
Statistics
Matches: 109, Mismatches: 13, Indels: 26
0.74 0.09 0.18
Matches are distributed among these distances:
43 36 0.33
44 1 0.01
45 1 0.01
46 2 0.02
48 1 0.01
50 1 0.01
52 2 0.02
53 1 0.01
55 64 0.59
ACGTcount: A:0.33, C:0.36, G:0.22, T:0.09
Consensus pattern (55 bp):
CACGCAAAAGCAGCTCCAACAGCAGCAGCAACTCCAGCAGCGACTGCAGCTCTAG
Found at i:29809 original size:43 final size:43
Alignment explanation
Indices: 29756--29851 Score: 165
Period size: 43 Copynumber: 2.2 Consensus size: 43
29746 AAAGTAGCTC
*
29756 CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCTAGCACG
1 CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCCAGCACG
* *
29799 CAACAACAGCAGCAACTCCAGCAGCGACTGCAGCTCCAGCACG
1 CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCCAGCACG
29842 CAACAGCAGC
1 CAACAGCAGC
29852 TCCAACGAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.33, C:0.39, G:0.21, T:0.07
Consensus pattern (43 bp):
CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCCAGCACG
Found at i:29865 original size:43 final size:43
Alignment explanation
Indices: 29756--29866 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
29746 AAAGTAGCTC
* * ** * *
29756 CAACAGCAGCAGCAACTCCAGCAACGACTGCAGCTCTAGCACG
1 CAACAACAGCACCAACGACAGCAGCGACTGCAGCTCCAGCACG
* **
29799 CAACAACAGCAGCAACTCCAGCAGCGACTGCAGCTCCAGCACG
1 CAACAACAGCACCAACGACAGCAGCGACTGCAGCTCCAGCACG
* * *
29842 CAACAGCAGCTCCAACGAGAGCAGC
1 CAACAACAGCACCAACGACAGCAGC
29867 AACTCCAGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.33, C:0.38, G:0.22, T:0.07
Consensus pattern (43 bp):
CAACAACAGCACCAACGACAGCAGCGACTGCAGCTCCAGCACG
Found at i:30856 original size:51 final size:51
Alignment explanation
Indices: 30801--30921 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 51
30791 CAATTGCTCA
* *
30801 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAA-TTTCC
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCC
*
30850 TTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCC
1 --TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCC
*
30903 -AATCGAGGATACTCCAACC
1 TAATCGGGGATACTCCAACC
30922 TCGTTATCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 17 0.27
51 31 0.49
52 10 0.16
53 5 0.08
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCC
Found at i:30995 original size:51 final size:50
Alignment explanation
Indices: 30935--31260 Score: 357
Period size: 51 Copynumber: 6.4 Consensus size: 50
30925 TTATCTCCGA
* * * * * *
30935 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCTTAATG
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTC-CATAATC
*
30986 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAACTTTCCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAA-TTTCCATAATC
* * *
31037 GGGGGTACTCCAACCCCGGTTTCATTTCTAAAACACTAACTTTCCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAA-TTTCCATAATC
** * * * * *
31088 AAGGATACTCTAAACCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTA-TTTCCAAAACA-CTAATTTCC-ATAATC
* * *
31141 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCC-ATAATC
* * *
31192 GGGGATACTCCAACCCCGATTTTATTTCTAAAACA-TCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACT-AA-TTTCCATAATC
31243 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
31261 TTATTTTCGA
Statistics
Matches: 239, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
51 178 0.74
52 33 0.14
53 28 0.12
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCCATAATC
Found at i:31324 original size:79 final size:79
Alignment explanation
Indices: 31192--31576 Score: 610
Period size: 79 Copynumber: 4.9 Consensus size: 79
31182 TCCTTTAATC
*
31192 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
31257 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * * *
31271 AGGGATACTTCTATCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
31336 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
31350 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTCCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
31415 CCCGTTATTTCCGA
66 CCCGTTATTTTCGA
* * *
31429 GGGGATACTCCAACCCCGGTTTTATTTCTACAACACCAATTTTTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
31494 CCTGTTA-TTTCTGA
66 CCCGTTATTTTC-GA
*
31508 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
31573 CCCG
66 CCCG
31577 ATTTTATTTT
Statistics
Matches: 277, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
78 3 0.01
79 274 0.99
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:31568 original size:51 final size:51
Alignment explanation
Indices: 31508--31643 Score: 159
Period size: 51 Copynumber: 2.6 Consensus size: 51
31498 TTATTTCTGA
*
31508 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTT-CATAATC
1 GGGGATACTCTAACCCCGGTTTTATTTCTAAAACA-CAATTTTTCCATAATC
* * * **
31559 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACCGTTTTTCCATAATC
1 GGGGATACTCTAACCCCGGTTTTA-TTTCTAAAACACAATTTTTCCATAATC
* *
31611 GGGGATACTCTAGCCCC-GTTGTTATCTCTAAAA
1 GGGGATACTCTAACCCCGGTT-TTATTTCTAAAA
31644 TTCTAATTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
51 36 0.51
52 35 0.49
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGGTTTTATTTCTAAAACACAATTTTTCCATAATC
Found at i:31654 original size:52 final size:49
Alignment explanation
Indices: 31508--31654 Score: 143
Period size: 52 Copynumber: 2.9 Consensus size: 49
31498 TTATTTCTGA
*
31508 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCTAACCCC-GTTTTATTTCTAAAA-ATCAATTTTTCATAATC
* * **
31559 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACA-CCGTTTTTCCATAATC
1 GGGGATACTCTAACCCCG-TTTTA-TTTCTA-AAAATCAATTTTT-CATAATC
* * *
31611 GGGGATACTCTAGCCCCGTTGTTATCTCTAAAATTCTAATTTTT
1 GGGGATACTCTAACCCCGTT-TTATTTCTAAAAATC-AATTTTT
31655 TTTTCGTCAG
Statistics
Matches: 77, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
50 3 0.04
51 34 0.44
52 38 0.49
53 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (49 bp):
GGGGATACTCTAACCCCGTTTTATTTCTAAAAATCAATTTTTCATAATC
Found at i:33168 original size:8 final size:8
Alignment explanation
Indices: 33155--33185 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
33145 ATTTGATTAA
33155 ATTTTGTG
1 ATTTTGTG
33163 ATTTTGTG
1 ATTTTGTG
33171 ATTTTGTG
1 ATTTTGTG
33179 ATGTTTG
1 AT-TTTG
33186 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:35268 original size:16 final size:16
Alignment explanation
Indices: 35249--35280 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35239 GTGATTAATA
*
35249 GAAATTGTTAATTTGC
1 GAAATTGTTAAATTGC
35265 GAAATTGTTAAATTGC
1 GAAATTGTTAAATTGC
35281 TTTATTAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (16 bp):
GAAATTGTTAAATTGC
Found at i:44321 original size:51 final size:51
Alignment explanation
Indices: 44205--44323 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 51
44195 TCGATACATT
* *
44205 ATACATCTAGGTAAAAAGACAGAATGTATCGATACATTGAAAAACGTATTC
1 ATACATCTCGGTAAAAAGACAAAATGTATCGATACATTGAAAAACGTATTC
* * *
44256 ATACATCTAC-GTAAAAAGACAAAATGTATCGATACGTTGAAGAATGTA-TC
1 ATACATCT-CGGTAAAAAGACAAAATGTATCGATACATTGAAAAACGTATTC
*
44306 GATGCATCTCGGTAAAAA
1 -ATACATCTCGGTAAAAA
44324 TATGACTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
50 3 0.05
51 56 0.95
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (51 bp):
ATACATCTCGGTAAAAAGACAAAATGTATCGATACATTGAAAAACGTATTC
Found at i:47630 original size:20 final size:20
Alignment explanation
Indices: 47605--47642 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47595 GTGAAAACTC
47605 AAAATGTATCGATACAATAA
1 AAAATGTATCGATACAATAA
*
47625 AAAATGTATCTATACAAT
1 AAAATGTATCGATACAAT
47643 TTCTTATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (20 bp):
AAAATGTATCGATACAATAA
Found at i:47738 original size:20 final size:20
Alignment explanation
Indices: 47713--47766 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
47703 CATTTCAGGC
*
47713 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTGACTT
* * *
47733 ATGTATCAATGCATTGCCTT
1 ATGTATCGATACATTGACTT
47753 ATTGTATCGATACA
1 A-TGTATCGATACA
47767 AGTTGTTGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTGACTT
Found at i:49421 original size:91 final size:90
Alignment explanation
Indices: 49282--49895 Score: 549
Period size: 91 Copynumber: 6.7 Consensus size: 90
49272 TAACATGTTT
* * * * * *
49282 TAATAAAATTAGTTTTGGAACTCGAAAGATGTGACAGAAGCATTGGGTATCAGATTCTTTTGGAT
1 TAATAAAATTAATCTTGGAACCCGAAAGATGTGACAGATGCATGGGGTATCAGATTCTTTT-GAC
*
49347 ATAATAGAAAATATTTGACTAATGCC
65 ACAATAGAAAATATTTGACTAATGCC
* *
49373 TAATAAAATTAATCTTGGAACCCGAAAGATGTGACAAATGCATGGGGTATCAGATTCTTTCAGAC
1 TAATAAAATTAATCTTGGAACCCGAAAGATGTGACAGATGCATGGGGTATCAGATTCTTT-TGAC
* *
49438 ACGATAGAAAATATTTGACTAATGCT
65 ACAATAGAAAATATTTGACTAATGCC
* *
49464 TAATAAAATTAATCTTGGAACCCGAAAGATATGATAGATGCATGGATGCTTAGGGTATCAGATTC
1 TAATAAAATTAATCTTGGAACCCGAAAG--ATG-T-GA--CA--GATGCATGGGGTATCAGATT-
* * *
49529 CTTTTGACATAACAGAAAATATTTGATTAATGCC
57 CTTTTGACACAATAGAAAATATTTGACTAATGCC
* * * * ** *
49563 TAGTAAAATTAATCTTGGAACCCGAAAGATATGACAGATGCATCGAGTATCAGATTTCTACTAAC
1 TAATAAAATTAATCTTGGAACCCGAAAGATGTGACAGATGCATGGGGTATCAGA-TTCTTTTGAC
* * *
49628 ACGATAGAAAATATTTAACTAATGCT
65 ACAATAGAAAATATTTGACTAATGCC
* * *
49654 TAAT-AAATT--TCTT-GAAACCTACAAGATGTGACAGATGCATGGGGCATCAGATTCTTTCTGA
1 TAATAAAATTAATCTTGGAACCCGA-AAGATGTGACAGATGCATGGGGTATCAGATTCTTT-TGA
* * *
49715 CACAATAGAATATATTTGACTAATACT
64 CACAATAGAAAATATTTGACTAATGCC
* ** * * * * * **
49742 TAATAAATTTAATCTTGGAACTTGAAAGATTTAATAGATTCATGGGGTATTAGATTCCTACTGAC
1 TAATAAAATTAATCTTGGAACCCGAAAGATGTGACAGATGCATGGGGTATCAGATT-CTTTTGAC
** * **
49807 ATGATAGAAAAGATTTGACTGGTGCC
65 ACAATAGAAAATATTTGACTAATGCC
* ** * ** *
49833 TAAT-AAATT--TCTTGAAACCTAAAAGATGTGACAAATGCATCAGGCATCAGATTCTTTCTGAC
1 TAATAAAATTAATCTTGGAACCCGAAAGATGTGACAGATGCATGGGGTATCAGATTCTTT-TGAC
49895 A
65 A
49896 TTGTCGCGAC
Statistics
Matches: 420, Mismatches: 84, Indels: 41
0.77 0.15 0.08
Matches are distributed among these distances:
87 12 0.03
88 95 0.23
89 4 0.01
90 9 0.02
91 205 0.49
92 8 0.02
93 5 0.01
94 1 0.00
95 4 0.01
96 1 0.00
97 4 0.01
99 68 0.16
100 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (90 bp):
TAATAAAATTAATCTTGGAACCCGAAAGATGTGACAGATGCATGGGGTATCAGATTCTTTTGACA
CAATAGAAAATATTTGACTAATGCC
Found at i:49588 original size:99 final size:99
Alignment explanation
Indices: 49417--49605 Score: 290
Period size: 99 Copynumber: 1.9 Consensus size: 99
49407 CAAATGCATG
* * *
49417 GGGTATCAGATTCTTTCAGACACGATAGAAAATATTTGACTAATGCTTAATAAAATTAATCTTGG
1 GGGTATCAGATTCTTTCAGACACAACAGAAAATATTTGACTAATGCCTAATAAAATTAATCTTGG
*
49482 AACCCGAAAGATATGATAGATGCATGGATGCTTA
66 AACCCGAAAGATATGACAGATGCATGGATGCTTA
* * * *
49516 GGGTATCAGATTCCTTT-TGACATAACAGAAAATATTTGATTAATGCCTAGTAAAATTAATCTTG
1 GGGTATCAGATT-CTTTCAGACACAACAGAAAATATTTGACTAATGCCTAATAAAATTAATCTTG
49580 GAACCCGAAAGATATGACAGATGCAT
65 GAACCCGAAAGATATGACAGATGCAT
49606 CGAGTATCAG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 77 0.95
100 4 0.05
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (99 bp):
GGGTATCAGATTCTTTCAGACACAACAGAAAATATTTGACTAATGCCTAATAAAATTAATCTTGG
AACCCGAAAGATATGACAGATGCATGGATGCTTA
Found at i:49703 original size:88 final size:87
Alignment explanation
Indices: 49542--49885 Score: 294
Period size: 88 Copynumber: 3.8 Consensus size: 87
49532 TTGACATAAC
* * * * * *
49542 AGAAAATATTTGATTAATGCCTAGTAAAATTAATCTTGGAACCCGAAAGATATGACAGATGCATC
1 AGAAAATATTTGACTAATGCTTAAT-AAATT--TCTT-GAAACCTAAAGATGTGACAGATGCATC
* * *
49607 GAGTATCAGATTTCTACTAACACGAT
62 GGGCATCAGATTTCTACTGACACGAT
* *
49633 AGAAAATATTTAACTAATGCTTAATAAATTTCTTGAAACCTACAAGATGTGACAGATGCATGGGG
1 AGAAAATATTTGACTAATGCTTAATAAATTTCTTGAAACCTA-AAGATGTGACAGATGCATCGGG
* *
49698 CATCAGA-TTCTTTCTGACACAAT
65 CATCAGATTTC-TACTGACACGAT
* * * * * * * * *
49721 AGAATATATTTGACTAATACTTAATAAATTTAATCTTGGAACTTGAAAGATTTAATAGATTCATG
1 AGAAAATATTTGACTAATGCTTAATAAA-TT--TCTTGAAACCT-AAAGATGTGACAGATGCATC
* * * *
49786 GGGTATTAGATTCCTACTGACATGAT
62 GGGCATCAGATTTCTACTGACACGAT
* ** * * *
49812 AGAAAAGATTTGACTGGTGCCTAATAAATTTCTTGAAACCTAAAAGATGTGACAAATGCATCAGG
1 AGAAAATATTTGACTAATGCTTAATAAATTTCTTGAAACCT-AAAGATGTGACAGATGCATCGGG
49877 CATCAGATT
65 CATCAGATT
49886 CTTTCTGACA
Statistics
Matches: 200, Mismatches: 46, Indels: 17
0.76 0.17 0.06
Matches are distributed among these distances:
87 9 0.05
88 95 0.47
89 2 0.01
90 7 0.04
91 84 0.42
92 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (87 bp):
AGAAAATATTTGACTAATGCTTAATAAATTTCTTGAAACCTAAAGATGTGACAGATGCATCGGGC
ATCAGATTTCTACTGACACGAT
Found at i:49839 original size:179 final size:177
Alignment explanation
Indices: 49306--49896 Score: 644
Period size: 179 Copynumber: 3.2 Consensus size: 177
49296 TTGGAACTCG
* * * *
49306 AAAGATGTGACAGAAGCATTGGGTATCAGATTCTTTTGGATATAATAGAAAATATTTGACTAATG
1 AAAGATGTGACAGATGCATAGGGCATCAGATTCTTTT-GACATAATAGAAAATATTTGACTAATG
* * * * *
49371 CCTAATAAAATTAATCTTGGAACCCGAAAGATGTGACAAATGCATGGGGTATCAGATTCTTTCAG
65 CCTAATAAAATTAATCTTGGAACCCGAAAGATATGACAGATGCATGGGGTATCAGATTCCTACTG
* *
49436 ACACGATAGAAAATATTTGACTAATGCTTAATAAAATTAATCTTGGAACCCG
130 ACACGATAGAAAATATTTGACTAATGCTTAAT-AAATT--TCTT-GAAACCT
* * *
49488 AAAGATATGATAGATGCATGGATGCTTAGGGTATCAGATTCCTTTTGACATAACAGAAAATATTT
1 AAAG--ATG-T-GA--CA--GATGCATAGGGCATCAGATT-CTTTTGACATAATAGAAAATATTT
* * * *
49553 GATTAATGCCTAGTAAAATTAATCTTGGAACCCGAAAGATATGACAGATGCATCGAGTATCAGAT
57 GACTAATGCCTAATAAAATTAATCTTGGAACCCGAAAGATATGACAGATGCATGGGGTATCAGAT
* * *
49618 TTCTACTAACACGATAGAAAATATTTAACTAATGCTTAATAAATTTCTTGAAACCT
122 TCCTACTGACACGATAGAAAATATTTGACTAATGCTTAATAAATTTCTTGAAACCT
* * *
49674 ACAAGATGTGACAGATGCATGGGGCATCAGATTCTTTCTGACACAATAGAATATATTTGACTAAT
1 A-AAGATGTGACAGATGCATAGGGCATCAGATTCTTT-TGACATAATAGAAAATATTTGACTAAT
* * * ** * * * * *
49739 ACTTAATAAATTTAATCTTGGAACTTGAAAGATTTAATAGATTCATGGGGTATTAGATTCCTACT
64 GCCTAATAAAATTAATCTTGGAACCCGAAAGATATGACAGATGCATGGGGTATCAGATTCCTACT
* * ** *
49804 GACATGATAGAAAAGATTTGACTGGTGCCTAATAAATTTCTTGAAACCT
129 GACACGATAGAAAATATTTGACTAATGCTTAATAAATTTCTTGAAACCT
*
49853 AAAAGATGTGACAAATGCATCA-GGCATCAGATTCTTTCTGACAT
1 -AAAGATGTGACAGATGCAT-AGGGCATCAGATTCTTT-TGACAT
49897 TGTCGCGACG
Statistics
Matches: 346, Mismatches: 50, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
178 4 0.01
179 171 0.49
180 1 0.00
181 2 0.01
182 4 0.01
183 2 0.01
184 4 0.01
185 4 0.01
186 8 0.02
187 7 0.02
188 2 0.01
189 5 0.01
190 127 0.37
191 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (177 bp):
AAAGATGTGACAGATGCATAGGGCATCAGATTCTTTTGACATAATAGAAAATATTTGACTAATGC
CTAATAAAATTAATCTTGGAACCCGAAAGATATGACAGATGCATGGGGTATCAGATTCCTACTGA
CACGATAGAAAATATTTGACTAATGCTTAATAAATTTCTTGAAACCT
Found at i:51019 original size:79 final size:77
Alignment explanation
Indices: 50838--51071 Score: 218
Period size: 79 Copynumber: 2.9 Consensus size: 77
50828 ATCTGTCCCG
* * * *
50838 ATGAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTAT-CCCTTTGAAAATAATGGGGT
1 ATGAGAAA-TCAATA-TTTGGAAATAA-AACGGGGTTGGAGTATCCCCTTAG-AAATAACGGGGT
**
50902 TGGAGTATCCCCGGTT
62 TGGAGTATCCCCAATT
* * * * * * *
50918 GTGAAAAATCGATGATTGGGAAATAAAATCGGGATTAGAGTATCCCCTCAGAAATAACGGGGTTG
1 ATGAGAAATCAAT-ATTTGGAAATAAAA-CGGGGTTGGAGTATCCCCTTAGAAATAACGGGGTTG
*
50983 GAGTATCCCTAATT
64 GAGTATCCCCAATT
* * ** *
50997 ATGAGAAATCAATATTCTGGAAATAAAGCCGGGGTTGGAGTATCCCCTTGGAGGTAACAGGGTTG
1 ATGAGAAATCAATATT-TGGAAATAAA-ACGGGGTTGGAGTATCCCCTTAGAAATAACGGGGTTG
51062 GAGTATCCCC
64 GAGTATCCCC
51072 GATGAAATAA
Statistics
Matches: 122, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
78 5 0.04
79 105 0.86
80 12 0.10
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (77 bp):
ATGAGAAATCAATATTTGGAAATAAAACGGGGTTGGAGTATCCCCTTAGAAATAACGGGGTTGGA
GTATCCCCAATT
Found at i:51082 original size:28 final size:28
Alignment explanation
Indices: 51028--51102 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
51018 AATAAAGCCG
* **
51028 GGGTTGGAGTATCCCC-TTGGAGGTAAC
1 GGGTTGGAGTATCCCCGATGGAAATAAC
51055 AGGGTTGGAGTATCCCCGAT-GAAATAAC
1 -GGGTTGGAGTATCCCCGATGGAAATAAC
*
51083 GAGGTTGGAGTATCCTCGAT
1 G-GGTTGGAGTATCCCCGAT
51103 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.02
28 39 0.95
29 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.25
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGGAAATAAC
Found at i:51195 original size:51 final size:50
Alignment explanation
Indices: 51085--51565 Score: 297
Period size: 51 Copynumber: 9.3 Consensus size: 50
51075 GAAATAACGA
** * * *
51085 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTAAG-GAAATTGGTG-TTTTGAAAATAAAACCGG
* *
51137 AGTTGGAGTATCCTCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCAG
1 GGTTGGAGTATCCTCGATT-AAGGAAATTGGTGTTTTGAAAATAAAACCGG
* *
51188 GGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTCGAAAAATAAAACCGG
1 GGTTGGAGTATCCTCGATT-AAGGAAA-TTGGTGTTTTG-AAAATAAAACCGG
* * * * *
51241 GGTTAGAGTATCC-CTGATTATGGAAAGTTAGTGTTTT-AGAAATGAAACGGG
1 GGTTGGAGTATCCTC-GATTAAGGAAA-TTGGTGTTTTGA-AAATAAAACCGG
* * *** * * *
51292 GGTTGGAGTATCCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCTCGATTAAG-GAAATTGGTGTTTTGAAAATAAAACCGG
* ** * * ***** * *
51343 GGTTGGAGTATCCCCTCGGAGGTAACGG-GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTAT--CCTC-GA-TTAA-GGAAATTGGTGTTTTGAAAAT-AAA-ACCGG
* * ** * * *
51399 GGTTGGAATATCCTTGATTGTGAAAGATTGGTGTTTTTAAAATAAAACCGA
1 GGTTGGAGTATCCTCGATTAAGGAA-ATTGGTGTTTTGAAAATAAAACCGG
*
51450 GGTTGGAGTATCC-CGATTAAAGGAAATTTGGTGTTTTGAAAAATAAAACCAG
1 GGTTGGAGTATCCTCGATT-AAGGAAA-TTGGTGTTTTG-AAAATAAAACCGG
* * * * *
51502 GGTTAGAGTATCCCCGATTATGGAAAATTAGTGTTTT-AGAAATAAAAGCGG
1 GGTTGGAGTATCCTCGATTAAGG-AAATTGGTGTTTTGA-AAATAAAACCGG
51553 GGTTGGAGTATCC
1 GGTTGGAGTATCC
51566 CCCATTATGA
Statistics
Matches: 329, Mismatches: 77, Indels: 47
0.73 0.17 0.10
Matches are distributed among these distances:
50 7 0.02
51 146 0.44
52 96 0.29
53 51 0.16
54 9 0.03
55 7 0.02
56 13 0.04
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCTCGATTAAGGAAATTGGTGTTTTGAAAATAAAACCGG
Found at i:51319 original size:104 final size:104
Alignment explanation
Indices: 51125--51312 Score: 247
Period size: 104 Copynumber: 1.8 Consensus size: 104
51115 GTGTTTTTGG
* * *
51125 AAATAAAATCGGAGTTGGAGTATCCTCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCAGGG
1 AAATAAAACCGGAGTTAGAGTATCCTCGATTAAAGGAAATTAGTGTTTTGAAAATAAAACCAGGG
*
51190 TTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTCGAA
66 TTGGAGTATCCCCCATTAAAGGAAATTTGGTGTTTCGAA
* * * **
51229 AAATAAAACCGGGGTTAGAGTATCC-CTGATT-ATGGAAAGTTAGTGTTTT-AGAAATGAAACGG
1 AAATAAAACCGGAGTTAGAGTATCCTC-GATTAAAGGAAA-TTAGTGTTTTGA-AAATAAAACCA
51291 GGGTTGGAGTATCCCCCATTAA
63 GGGTTGGAGTATCCCCCATTAA
51313 GAGAAATCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
103 8 0.11
104 64 0.89
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (104 bp):
AAATAAAACCGGAGTTAGAGTATCCTCGATTAAAGGAAATTAGTGTTTTGAAAATAAAACCAGGG
TTGGAGTATCCCCCATTAAAGGAAATTTGGTGTTTCGAA
Found at i:51396 original size:28 final size:28
Alignment explanation
Indices: 51340--51411 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
51330 GAAATAAAGC
** **
51340 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
51368 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* *
51396 CGAGGTTGGAATATCC
1 CGGGGTTGGAGTATCC
51412 TTGATTGTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:52761 original size:43 final size:42
Alignment explanation
Indices: 52704--52828 Score: 138
Period size: 43 Copynumber: 3.1 Consensus size: 42
52694 ATTGCTACCT
*
52704 GCTAGAGTTGCTGCTCTCGCTGGAGCTGCTGTTGCGTGCTAGA
1 GCTA-AGTCGCTGCTCTCGCTGGAGCTGCTGTTGCGTGCTAGA
*
52747 GCTACAGTCGCTGCTGCT-GTTGGAGCTGCTGTTGCGTGCTAGA
1 GCTA-AGTCGCTGCT-CTCGCTGGAGCTGCTGTTGCGTGCTAGA
* *
52790 GCT--GTCGC--CGC-CGCTGGAGCTGGTGTTGC-TGCTAGA
1 GCTAAGTCGCTGCTCTCGCTGGAGCTGCTGTTGCGTGCTAGA
52826 GCT
1 GCT
52829 GCTTCTGCGT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
36 10 0.14
37 16 0.22
38 1 0.01
40 5 0.07
43 40 0.54
44 2 0.03
ACGTcount: A:0.10, C:0.25, G:0.36, T:0.29
Consensus pattern (42 bp):
GCTAAGTCGCTGCTCTCGCTGGAGCTGCTGTTGCGTGCTAGA
Found at i:52777 original size:18 final size:18
Alignment explanation
Indices: 52756--52870 Score: 58
Period size: 18 Copynumber: 6.4 Consensus size: 18
52746 AGCTACAGTC
*
52756 GCTGCTGCTGTTGGAGCT
1 GCTGCTGCTGCTGGAGCT
* *
52774 GCTGTTGCGTGCTAGAGCT
1 GCTGCTGC-TGCTGGAGCT
* *
52793 G-TCGCCGCCGCTGGAGCT
1 GCT-GCTGCTGCTGGAGCT
* * *
52811 GGTGTTGCTGCTAGAGCT
1 GCTGCTGCTGCTGGAGCT
* *
52829 GCTTCTGCGTGTTGGAG-T
1 GCTGCTGC-TGCTGGAGCT
* *
52847 -C-GTTGGCTACTGGAGCT
1 GCTGCT-GCTGCTGGAGCT
52864 GCTGCTG
1 GCTGCTG
52871 TTGTTTATTC
Statistics
Matches: 68, Mismatches: 21, Indels: 16
0.65 0.20 0.15
Matches are distributed among these distances:
16 7 0.10
17 4 0.06
18 36 0.53
19 21 0.31
ACGTcount: A:0.08, C:0.23, G:0.38, T:0.30
Consensus pattern (18 bp):
GCTGCTGCTGCTGGAGCT
Found at i:53201 original size:26 final size:26
Alignment explanation
Indices: 53142--53272 Score: 201
Period size: 26 Copynumber: 5.1 Consensus size: 26
53132 TGTCTACAAT
*
53142 TGCAATTTTTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
* *
53168 TGCA-TTTTTGTTTCCTTTCCCGTGC
1 TGCATTTTTTATTTCCTTTCCCATGC
53193 TGCATTTTTTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
*
53219 TGCATTTTCTATTTCCTTTCCCATGC
1 TGCATTTTTTATTTCCTTTCCCATGC
* *
53245 TGCATTTTCTATTTCCTTTCCCGTGC
1 TGCATTTTTTATTTCCTTTCCCATGC
53271 TG
1 TG
53273 TTCATGTTTT
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 23 0.23
26 75 0.77
ACGTcount: A:0.10, C:0.28, G:0.11, T:0.51
Consensus pattern (26 bp):
TGCATTTTTTATTTCCTTTCCCATGC
Found at i:53411 original size:6 final size:6
Alignment explanation
Indices: 53377--53403 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
53367 ATTATTATTT
53377 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
53404 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:54110 original size:95 final size:95
Alignment explanation
Indices: 53960--54169 Score: 332
Period size: 95 Copynumber: 2.2 Consensus size: 95
53950 GGAAAAGGTG
*
53960 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGTTTTAAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTACTCTT
54025 TGAGGACTAAAAGGGTGAAAGGAGAGAGCA
66 TGAGGACTAAAAGGGTGAAAGGAGAGAGCA
* * * *
54055 TCCTGCTTTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTACTCT
* *
54119 TTGGGGACTAAAAGGGTGAAAGGAGAGAGCG
65 TTGAGGACTAAAAGGGTGAAAGGAGAGAGCA
*
54150 TCCTACTCTTTGAGGACTAG
1 TCCTGCTCTTTGAGGACTAG
54170 GAAAGTAGAA
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
94 5 0.05
95 98 0.94
96 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (95 bp):
TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTACTCTT
TGAGGACTAAAAGGGTGAAAGGAGAGAGCA
Found at i:57125 original size:13 final size:13
Alignment explanation
Indices: 57107--57148 Score: 66
Period size: 14 Copynumber: 3.1 Consensus size: 13
57097 GGCGTCCTCC
57107 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
57120 ACAAAAAAACAAAA
1 ACAAAAAAA-AAAA
57134 ACAAAAAACAAAAA
1 ACAAAAAA-AAAAA
57148 A
1 A
57149 AGGGGTCCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.33
14 17 0.63
15 1 0.04
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:57131 original size:21 final size:21
Alignment explanation
Indices: 57107--57149 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
57097 GGCGTCCTCC
57107 ACAAAAAAAAAAAACAAAAAA
1 ACAAAAAAAAAAAACAAAAAA
*
57128 ACAAAAACAAAAAACAAAAAA
1 ACAAAAAAAAAAAACAAAAAA
57149 A
1 A
57150 GGGGTCCGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (21 bp):
ACAAAAAAAAAAAACAAAAAA
Found at i:58636 original size:29 final size:30
Alignment explanation
Indices: 58586--58941 Score: 277
Period size: 30 Copynumber: 11.8 Consensus size: 30
58576 TTCCTCACCC
58586 TTCAAAAGCCCACAAGTCAGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
* * *
58615 TTCCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
* **
58645 TTCAAAAGCCCACAAATTGGTGGCAAC-C--
1 TTCAAAAGCCCACAAGTCAGTGGC-ACTCTT
* *
58673 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
** *
58702 TTCCGAAGCCCACAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
58731 TTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTC-TT
** * * *
58762 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACTC-TT
** * *
58797 TTCCTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TT-C--AAAAGCCCACAAGTCAGTGGCACTCTT
*
58830 TTCAAAAGCCCACAAGTTAGTGGCATCTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-CTCTT
58861 TTCAAAAGCCCACAAGTCAGTGGCAAC-C-T
1 TTCAAAAGCCCACAAGTCAGTGGC-ACTCTT
*
58890 TT-AAAAGCCCACAAGTCAGTGGCAATC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
58918 TT-AAAAGCCCACAAGTCAGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCA
58942 ACCTTCAAAA
Statistics
Matches: 276, Mismatches: 33, Indels: 37
0.80 0.10 0.11
Matches are distributed among these distances:
26 2 0.01
27 20 0.07
28 50 0.18
29 53 0.19
30 66 0.24
31 35 0.13
32 2 0.01
33 5 0.02
34 19 0.07
35 23 0.08
36 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:58685 original size:57 final size:59
Alignment explanation
Indices: 58586--58953 Score: 239
Period size: 59 Copynumber: 6.2 Consensus size: 59
58576 TTCCTCACCC
* * * * *
58586 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCACCCTT
* *
58645 TTCAAAAGCCCACAAATTGGTGGCAAC-CTT-CAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCACCCTT
** * * * * * *
58702 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCAC-CCTT
** * * ** * * * *
58762 TTCTTTTGTAAGCTCACAACTCTATAGC-ACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCAC
1 TTC----AAAAGCCCACAAGTCGGTGGCAACTC---TTCC---AAAGCCCACAAATCAGTGGCAC
58826 CCTT
56 CCTT
** * * * *
58830 TTCAAAAGCCCACAAGTTAGTGGCATCTCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCGGTGGCAACTC--TTCCAAAGCCCACAAATCAGTGGCACCCTT
* ** * *
58890 TT-AAAAGCCCACAAGTCAGTGGCAA-TCTTTAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCACCCTT
58945 TTCAAAAGC
1 TTCAAAAGC
58954 ACGCAAGTTG
Statistics
Matches: 246, Mismatches: 48, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
55 2 0.01
56 33 0.13
57 47 0.19
58 6 0.02
59 64 0.26
60 9 0.04
61 21 0.09
63 2 0.01
64 32 0.13
65 3 0.01
66 4 0.02
68 6 0.02
69 17 0.07
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCACCCTT
Found at i:58781 original size:35 final size:34
Alignment explanation
Indices: 58740--58814 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
58730 TTTCCAAAGT
* * *
58740 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTT-TAAGC
* *
58775 TCACAACTCTATAGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
58809 CCACAA
1 CCACAA
58815 GTTAGTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (34 bp):
CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
Found at i:58904 original size:28 final size:29
Alignment explanation
Indices: 58805--58987 Score: 205
Period size: 28 Copynumber: 6.3 Consensus size: 29
58795 TTTTCCTTTT
* *
58805 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTT-AA
* *
58835 AAGCCCACAAGTTAGTGGCATCTCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAAC-CTTTT-AA
58866 AAGCCCACAAGTCAGTGGCAACC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
*
58894 AAGCCCACAAGTCAGTGGCAATC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
*
58922 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
* * *
58950 AAGCACGCAAGT-TGAT-GCAATCCTTTTAA
1 AAGCCCACAAGTCAG-TGGCAA-CCTTTTAA
58979 AAGCCCACA
1 AAGCCCACA
58988 CAAGTTGGTG
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
27 5 0.04
28 68 0.50
29 14 0.10
30 22 0.16
31 28 0.20
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTTAA
Found at i:59078 original size:52 final size:50
Alignment explanation
Indices: 59009--59293 Score: 319
Period size: 52 Copynumber: 5.9 Consensus size: 50
58999 CGTCTTCTTC
* *
59009 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTACC-T
* *
59061 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* * * *
59105 -AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
*
59156 TAAGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
*
59200 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
*
59251 TAAGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
59294 CATCTTTAAC
Statistics
Matches: 196, Mismatches: 19, Indels: 36
0.78 0.08 0.14
Matches are distributed among these distances:
43 73 0.37
45 1 0.01
46 2 0.01
47 3 0.02
48 1 0.01
50 3 0.02
52 113 0.58
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (50 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
Found at i:59173 original size:95 final size:95
Alignment explanation
Indices: 59010--59292 Score: 487
Period size: 95 Copynumber: 3.0 Consensus size: 95
59000 GTCTTCTTCT
* * * *
59010 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-ACCTTTAAGTCCAATGTA
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCTTTAAGTCCTATATC
59074 GCTGGCCTTGAATCAGCACATTGGCACCTCC
65 GCTGGCCTTGAATCAGCACATTGGCACCTCC
*
59105 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
59170 CTGGCCTTGAATCAGCACATTGGCACCTCC
66 CTGGCCTTGAATCAGCACATTGGCACCTCC
* *
59200 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCCTTAAGTCCTATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
59265 CTGGCCTTGAATCAGCACATTGGCACCT
66 CTGGCCTTGAATCAGCACATTGGCACCT
59293 TCATCTTTAA
Statistics
Matches: 179, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
94 2 0.01
95 177 0.99
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
CTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:60185 original size:13 final size:13
Alignment explanation
Indices: 60167--60191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60157 CATAAAGTGT
60167 TGTATCGATACAA
1 TGTATCGATACAA
60180 TGTATCGATACA
1 TGTATCGATACA
60192 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:60189 original size:33 final size:33
Alignment explanation
Indices: 60147--60213 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
60137 TTCAACGATT
60147 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
60180 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
60213 T
1 T
60214 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:60272 original size:13 final size:13
Alignment explanation
Indices: 60254--60278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60244 ATCACTTAAA
60254 TGTATCGATACAT
1 TGTATCGATACAT
60267 TGTATCGATACA
1 TGTATCGATACA
60279 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:74216 original size:1 final size:1
Alignment explanation
Indices: 74210--74264 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
74200 CGTCCTCCAC
* * * * * *
74210 AAAAAAAAAAACAAACAAAAAAACAAAAACAAAAAACAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
74265 GGGGTCCGGA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:74229 original size:12 final size:11
Alignment explanation
Indices: 74211--74264 Score: 81
Period size: 11 Copynumber: 4.6 Consensus size: 11
74201 GTCCTCCACA
74211 AAAAAAAAAAC
1 AAAAAAAAAAC
74222 AAACAAAAAAAC
1 AAA-AAAAAAAC
74234 AAAAACAAAAAAC
1 -AAAA-AAAAAAC
74247 AAAAAAAAAAC
1 AAAAAAAAAAC
74258 AAAAAAA
1 AAAAAAA
74265 GGGGTCCGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
11 17 0.43
12 13 0.32
13 10 0.25
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:74235 original size:24 final size:23
Alignment explanation
Indices: 74208--74264 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 23
74198 GGCGTCCTCC
74208 ACAAAAAAAAAAACAAACAAAAAA
1 ACAAAAAAAAAAACAAA-AAAAAA
74232 ACAAAAACAAAAAACAAAAAAAAA
1 ACAAAAA-AAAAAACAAAAAAAAA
74256 ACAAAAAAA
1 ACAAAAAAA
74265 GGGGTCCGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.06
24 20 0.62
25 10 0.31
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (23 bp):
ACAAAAAAAAAAACAAAAAAAAA
Found at i:74237 original size:18 final size:16
Alignment explanation
Indices: 74210--74264 Score: 74
Period size: 18 Copynumber: 3.2 Consensus size: 16
74200 CGTCCTCCAC
74210 AAAAAAAAAAACAAACA
1 AAAAAAAAAAACAAA-A
74227 AAAAAACAAAAACAAAAA
1 AAAAAA-AAAAAC-AAAA
74245 ACAAAAAAAAAACAAAA
1 A-AAAAAAAAAACAAAA
74262 AAA
1 AAA
74265 GGGGTCCGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.06
17 11 0.31
18 14 0.40
19 8 0.23
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAACAAAA
Found at i:75752 original size:29 final size:30
Alignment explanation
Indices: 75702--76057 Score: 277
Period size: 30 Copynumber: 11.8 Consensus size: 30
75692 TTCCTCACCC
75702 TTCAAAAGCCCACAAGTCAGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
* * *
75731 TTCCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
* **
75761 TTCAAAAGCCCACAAATTGGTGGCAAC-C--
1 TTCAAAAGCCCACAAGTCAGTGGC-ACTCTT
* *
75789 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
** *
75818 TTCCGAAGCCCACAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
75847 TTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACTC-TT
** * * *
75878 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCACTC-TT
** * *
75913 TTCCTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TT-C--AAAAGCCCACAAGTCAGTGGCACTCTT
*
75946 TTCAAAAGCCCACAAGTTAGTGGCATCTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-CTCTT
75977 TTCAAAAGCCCACAAGTCAGTGGCAAC-C-T
1 TTCAAAAGCCCACAAGTCAGTGGC-ACTCTT
*
76006 TT-AAAAGCCCACAAGTCAGTGGCAATC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACTCTT
76034 TT-AAAAGCCCACAAGTCAGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCA
76058 ACCTTCAAAA
Statistics
Matches: 276, Mismatches: 33, Indels: 37
0.80 0.10 0.11
Matches are distributed among these distances:
26 2 0.01
27 20 0.07
28 50 0.18
29 53 0.19
30 66 0.24
31 35 0.13
32 2 0.01
33 5 0.02
34 19 0.07
35 23 0.08
36 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:75801 original size:57 final size:59
Alignment explanation
Indices: 75702--76069 Score: 239
Period size: 59 Copynumber: 6.2 Consensus size: 59
75692 TTCCTCACCC
* * * * *
75702 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCACCCTT
* *
75761 TTCAAAAGCCCACAAATTGGTGGCAAC-CTT-CAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCACCCTT
** * * * * * *
75818 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCAC-CCTT
** * * ** * * * *
75878 TTCTTTTGTAAGCTCACAACTCTATAGC-ACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCAC
1 TTC----AAAAGCCCACAAGTCGGTGGCAACTC---TTCC---AAAGCCCACAAATCAGTGGCAC
75942 CCTT
56 CCTT
** * * * *
75946 TTCAAAAGCCCACAAGTTAGTGGCATCTCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCGGTGGCAACTC--TTCCAAAGCCCACAAATCAGTGGCACCCTT
* ** * *
76006 TT-AAAAGCCCACAAGTCAGTGGCAA-TCTTTAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCACCCTT
76061 TTCAAAAGC
1 TTCAAAAGC
76070 ACGCAAGTTG
Statistics
Matches: 246, Mismatches: 48, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
55 2 0.01
56 33 0.13
57 47 0.19
58 6 0.02
59 64 0.26
60 9 0.04
61 21 0.09
63 2 0.01
64 32 0.13
65 3 0.01
66 4 0.02
68 6 0.02
69 17 0.07
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCACAAATCAGTGGCACCCTT
Found at i:75897 original size:35 final size:34
Alignment explanation
Indices: 75856--75930 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
75846 TTTCCAAAGT
* * *
75856 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTT-TAAGC
* *
75891 TCACAACTCTATAGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
75925 CCACAA
1 CCACAA
75931 GTTAGTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (34 bp):
CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
Found at i:76020 original size:28 final size:29
Alignment explanation
Indices: 75921--76103 Score: 205
Period size: 28 Copynumber: 6.3 Consensus size: 29
75911 TTTTCCTTTT
* *
75921 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTT-AA
* *
75951 AAGCCCACAAGTTAGTGGCATCTCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAAC-CTTTT-AA
75982 AAGCCCACAAGTCAGTGGCAACC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
*
76010 AAGCCCACAAGTCAGTGGCAATC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
*
76038 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
* * *
76066 AAGCACGCAAGT-TGAT-GCAATCCTTTTAA
1 AAGCCCACAAGTCAG-TGGCAA-CCTTTTAA
76095 AAGCCCACA
1 AAGCCCACA
76104 CAAGTTGGTG
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
27 5 0.04
28 68 0.50
29 14 0.10
30 22 0.16
31 28 0.20
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTTAA
Found at i:76194 original size:52 final size:50
Alignment explanation
Indices: 76125--76409 Score: 310
Period size: 52 Copynumber: 5.9 Consensus size: 50
76115 CGTCTTCTTC
* *
76125 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTACC-T
* *
76177 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* * * * *
76221 -AAGTTCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
*
76272 TAAGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
*
76316 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
*
76367 TAAGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
76410 CATCTTTAAC
Statistics
Matches: 194, Mismatches: 21, Indels: 36
0.77 0.08 0.14
Matches are distributed among these distances:
43 72 0.37
45 1 0.01
46 2 0.01
47 3 0.02
48 1 0.01
50 3 0.02
52 112 0.58
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (50 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
Found at i:76294 original size:95 final size:95
Alignment explanation
Indices: 76126--76408 Score: 478
Period size: 95 Copynumber: 3.0 Consensus size: 95
76116 GTCTTCTTCT
* * * *
76126 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-ACCTTTAAGTCCAATGTA
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCTTTAAGTCCTATATC
76190 GCTGGCCTTGAATCAGCACATTGGCACCTCC
65 GCTGGCCTTGAATCAGCACATTGGCACCTCC
* *
76221 AAGTTCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
76286 CTGGCCTTGAATCAGCACATTGGCACCTCC
66 CTGGCCTTGAATCAGCACATTGGCACCTCC
* *
76316 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCCTTAAGTCCTATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
76381 CTGGCCTTGAATCAGCACATTGGCACCT
66 CTGGCCTTGAATCAGCACATTGGCACCT
76409 TCATCTTTAA
Statistics
Matches: 177, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 2 0.01
95 175 0.99
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
CTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:77301 original size:13 final size:13
Alignment explanation
Indices: 77283--77307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77273 CATAAAGTGT
77283 TGTATCGATACAA
1 TGTATCGATACAA
77296 TGTATCGATACA
1 TGTATCGATACA
77308 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:77305 original size:33 final size:33
Alignment explanation
Indices: 77263--77329 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
77253 TTCAACGATT
77263 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
77296 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
77329 T
1 T
77330 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:77388 original size:13 final size:13
Alignment explanation
Indices: 77370--77394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77360 ATCACTTAAA
77370 TGTATCGATACAT
1 TGTATCGATACAT
77383 TGTATCGATACA
1 TGTATCGATACA
77395 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:82387 original size:1 final size:1
Alignment explanation
Indices: 82381--82464 Score: 51
Period size: 1 Copynumber: 84.0 Consensus size: 1
82371 GGCGTCCTCT
** ** * * * * * *
82381 AAAAAAAACGAAAAAAATGAAAAAACAAAAAAAAACAAAAGAAAAAAAAACAAAAACAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
82446 AACAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAA
82465 GGGGGTCCGG
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.02
Consensus pattern (1 bp):
A
Found at i:82396 original size:10 final size:9
Alignment explanation
Indices: 82381--82464 Score: 68
Period size: 9 Copynumber: 9.7 Consensus size: 9
82371 GGCGTCCTCT
82381 AAAAAAAAC
1 AAAAAAAAC
*
82390 GAAAAAAA-
1 AAAAAAAAC
**
82398 TGAAAAAAC
1 AAAAAAAAC
82407 AAAAAAAA-
1 AAAAAAAAC
* *
82415 ACAAAAGA-
1 AAAAAAAAC
82423 AAAAAAAAC
1 AAAAAAAAC
*
82432 AAAAACAA-
1 AAAAAAAAC
*
82440 TAAAAAAAC
1 AAAAAAAAC
82449 AAACAAAAAC
1 AAA-AAAAAC
82459 AAAAAA
1 AAAAAA
82465 GGGGGTCCGG
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
8 24 0.41
9 25 0.43
10 9 0.16
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:82415 original size:21 final size:21
Alignment explanation
Indices: 82391--82462 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
82381 AAAAAAAACG
82391 AAAAAAATGAAAAAACAAAAA
1 AAAAAAATGAAAAAACAAAAA
* *
82412 AAAACAAAAGAAAAAA-AAACA
1 AAAA-AAATGAAAAAACAAAAA
* *
82433 AAAACAATAAAAAAACAAACAA
1 AAAAAAATGAAAAAACAAA-AA
82455 AAACAAAA
1 AAA-AAAA
82463 AAGGGGGTCC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
20 8 0.20
21 15 0.38
22 14 0.35
23 3 0.08
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (21 bp):
AAAAAAATGAAAAAACAAAAA
Found at i:82420 original size:17 final size:17
Alignment explanation
Indices: 82383--82464 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
82373 CGTCCTCTAA
* **
82383 AAAAAACGAAAAAAATG
1 AAAAAACAAAAAAAAAC
82400 AAAAAACAAAAAAAAAC
1 AAAAAACAAAAAAAAAC
*
82417 --AAAAGAAAAAAAAAC
1 AAAAAACAAAAAAAAAC
82432 -AAAAACAATAAAAAAAC
1 AAAAAACAA-AAAAAAAC
82449 AAACAAA-AACAAAAAA
1 AAA-AAACAA-AAAAAA
82465 GGGGGTCCGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
15 14 0.25
16 6 0.11
17 22 0.40
18 10 0.18
19 3 0.05
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (17 bp):
AAAAAACAAAAAAAAAC
Found at i:82446 original size:42 final size:42
Alignment explanation
Indices: 82381--82462 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
82371 GGCGTCCTCT
*
82381 AAAAAAAACGAAAAAAATGAAAAAACAAAAAAAAACAAAAGA
1 AAAAAAAACGAAAAAAATAAAAAAACAAAAAAAAACAAAAGA
*
82423 AAAAAAAAC-AAAAACAATAAAAAAACAAACAAAAACAAAA
1 AAAAAAAACGAAAAA-AATAAAAAAACAAAAAAAAACAAAA
82463 AAGGGGGTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 5 0.14
42 32 0.86
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (42 bp):
AAAAAAAACGAAAAAAATAAAAAAACAAAAAAAAACAAAAGA
Found at i:83965 original size:30 final size:29
Alignment explanation
Indices: 83910--84359 Score: 261
Period size: 30 Copynumber: 15.3 Consensus size: 29
83900 TCACCCTTCA
*
83910 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
*
83939 AAAGCCCACAAGTCAATGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
***
83968 GAAAGCCCACAAGTCAGTGGCA--ACCTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
* ** *
83996 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TTTTTTTC
* * * *
84026 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
* * * *
84055 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCA-----TTT-TTTTC
* * * * * *
84090 TAAGCTCACAACTCTA-TAGCACTCTTTTC
1 AAAGCCCACAAGTC-AGTGGCATTTTTTTC
* ***
84119 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
*
84146 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
*** *
84176 AAAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
* *** *
84205 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
* *
84234 AAAAGCCCACAAGTCAATGGCATATTTTTTA
1 -AAAGCCCACAAGTCAGTGGCAT-TTTTTTC
*** *
84265 AAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
***
84293 AAAGCCCACAAGTCAGTGGCA--ACCTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
* ** *
84320 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TTTTTTTC
84350 AAAGCCCACA
1 AAAGCCCACA
84360 CAAGTCGGTG
Statistics
Matches: 334, Mismatches: 66, Indels: 41
0.76 0.15 0.09
Matches are distributed among these distances:
26 1 0.00
27 63 0.19
28 48 0.14
29 62 0.19
30 137 0.41
31 3 0.01
34 2 0.01
35 18 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTC
Found at i:84011 original size:27 final size:27
Alignment explanation
Indices: 83969--84021 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
83959 ATTTTTTTCG
*
83969 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
83996 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
84022 TTCCGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:84224 original size:88 final size:87
Alignment explanation
Indices: 84119--84375 Score: 374
Period size: 88 Copynumber: 2.9 Consensus size: 87
84109 CACTCTTTTC
84119 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCC-TTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
84184 ACAAGTCAGTGGCAACCTTTAAA
65 ACAAGTCAGTGGCAACCTTTAAA
* *
84207 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAATGGCATATTTTTTAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCT-TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
84272 ACAAGTCAGTGGCAACCTTTAAA
65 ACAAGTCAGTGGCAACCTTTAAA
* * * *** *
84295 AGCCCACAAGTCAGTGGCAACC-TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCA
1 AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAG-CC-
*
84358 CACAAGTCGGTGGCAACC
64 CACAAGTCAGTGGCAACC
84376 CTTCTAAGCC
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
85 27 0.18
86 5 0.03
87 18 0.12
88 104 0.68
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.20
Consensus pattern (87 bp):
AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
CAAGTCAGTGGCAACCTTTAAA
Found at i:84235 original size:58 final size:58
Alignment explanation
Indices: 84119--84375 Score: 304
Period size: 58 Copynumber: 4.4 Consensus size: 58
84109 CACTCTTTTC
* * ***
84119 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* *
84179 AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* ** *
84237 AGCCCACAAGTCAATGGCATATTTTTTAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAA
1 AGCCCACAAGTCAGTGGCA-A-CCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* * *
84295 AGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAA
1 AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
84352 AGCCCACACAAGTCGGTGGCAACC
1 AG-CC-CACAAGTCAGTGGCAACC
84376 CTTCTAAGCC
Statistics
Matches: 170, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
55 24 0.14
56 3 0.02
57 5 0.03
58 69 0.41
59 23 0.14
60 46 0.27
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.20
Consensus pattern (58 bp):
AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
Found at i:84442 original size:49 final size:49
Alignment explanation
Indices: 84380--84674 Score: 309
Period size: 49 Copynumber: 6.0 Consensus size: 49
84370 GCAACCCTTC
* *
84380 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
84429 TAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
84478 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
84521 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * *
84573 TAAGAT-CAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAG-TCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-T-ATCTT
* * * * *
84628 TAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTTATC
84675 ACTTTTCTCA
Statistics
Matches: 211, Mismatches: 19, Indels: 32
0.81 0.07 0.12
Matches are distributed among these distances:
43 41 0.19
44 1 0.00
48 1 0.00
49 84 0.40
50 1 0.00
51 2 0.01
52 37 0.18
53 3 0.01
54 2 0.01
55 38 0.18
56 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:84533 original size:43 final size:43
Alignment explanation
Indices: 84472--84564 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
84462 TTGGCACCTT
84472 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
*
84515 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
84558 CACCTTT
1 CACCTTT
84565 TCCATCTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:84542 original size:22 final size:22
Alignment explanation
Indices: 84474--84542 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
84464 GGCACCTTCA
84474 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * *
84496 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATAGCTGG
84517 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
84539 CCTT
1 CCTT
84543 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:84554 original size:92 final size:95
Alignment explanation
Indices: 84426--84617 Score: 302
Period size: 92 Copynumber: 2.0 Consensus size: 95
84416 GCACCTTTAT
84426 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACC-TT-CACCTTTAAG-TCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCACCTTTAAGAT-CAAT
*
84488 ATAGCTGGCCTTGAATCAGCACATTGGCA-C
65 ATAGCTGGCCTTGAATCAGCACATTGACATC
* *
84518 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGATCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACC-TTTCCACCTTTAAGATCAAT
*
84583 GTAGCTGGCCTTGAATCAGCACATTGACATC
65 ATAGCTGGCCTTGAATCAGCACATTGACATC
84614 CTTT
1 CTTT
84618 TTCTCATCTT
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
92 43 0.47
94 2 0.02
95 40 0.44
96 6 0.07
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (95 bp):
CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCACCTTTAAGATCAATA
TAGCTGGCCTTGAATCAGCACATTGACATC
Found at i:84596 original size:52 final size:52
Alignment explanation
Indices: 84518--84671 Score: 168
Period size: 52 Copynumber: 2.9 Consensus size: 52
84508 ACATTGGCAC
84518 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGT-CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * *
84570 CTTTAAGATCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAG-TCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
84625 CTTTAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CTTTAAG-TCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
84672 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
52 37 0.44
53 6 0.07
54 7 0.08
55 35 0.41
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:85518 original size:33 final size:33
Alignment explanation
Indices: 85481--85547 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
85471 TTCAACGATT
85481 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
85514 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
85547 T
1 T
85548 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:85519 original size:13 final size:13
Alignment explanation
Indices: 85501--85525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85491 CATAAAATGT
85501 TGTATCGATACAA
1 TGTATCGATACAA
85514 TGTATCGATACA
1 TGTATCGATACA
85526 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:85606 original size:13 final size:13
Alignment explanation
Indices: 85588--85612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85578 ATTACTCAAA
85588 TGTATCGATACAT
1 TGTATCGATACAT
85601 TGTATCGATACA
1 TGTATCGATACA
85613 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:85677 original size:52 final size:52
Alignment explanation
Indices: 85621--85801 Score: 326
Period size: 52 Copynumber: 3.5 Consensus size: 52
85611 CACTGATCTT
*
85621 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
85673 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
85725 TGTATCGATACACGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
85777 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
85802 TCATATTTCG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:88953 original size:13 final size:13
Alignment explanation
Indices: 88935--88959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88925 CATAAAGTGT
88935 TGTATCGATACAA
1 TGTATCGATACAA
88948 TGTATCGATACA
1 TGTATCGATACA
88960 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:88957 original size:33 final size:33
Alignment explanation
Indices: 88915--88981 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
88905 TTCAACGATT
88915 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
88948 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
88981 T
1 T
88982 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:89040 original size:13 final size:13
Alignment explanation
Indices: 89022--89046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89012 ATCACTTAAA
89022 TGTATCGATACAT
1 TGTATCGATACAT
89035 TGTATCGATACA
1 TGTATCGATACA
89047 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:102983 original size:1 final size:1
Alignment explanation
Indices: 102977--103028 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
102967 CGTCCTCCAC
* * * * * *
102977 AAAAAAAAACAAACAAAAAAACAAAAACAAAAAACAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
103029 GGGGTCCGGA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:102994 original size:14 final size:13
Alignment explanation
Indices: 102975--103028 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 13
102965 GGCGTCCTCC
102975 ACAAAAAAAAACAA
1 ACAAAAAAAAA-AA
102989 ACAAAAAAACAAAA
1 ACAAAAAAA-AAAA
103003 ACAAAAAACAAAAA
1 ACAAAAAA-AAAAA
103017 A-AAACAAAAAAA
1 ACAAA-AAAAAAA
103029 GGGGTCCGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.19
14 27 0.73
15 3 0.08
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:102996 original size:13 final size:12
Alignment explanation
Indices: 102977--103028 Score: 72
Period size: 12 Copynumber: 4.4 Consensus size: 12
102967 CGTCCTCCAC
102977 AAAAAAAAACAA
1 AAAAAAAAACAA
*
102989 ACAAAAAAACAA
1 AAAAAAAAACAA
103001 AAACAAAAAAC--
1 AAA-AAAAAACAA
103012 AAAAAAAAACAA
1 AAAAAAAAACAA
103024 AAAAA
1 AAAAA
103029 GGGGTCCGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 7 0.20
11 3 0.09
12 18 0.51
13 7 0.20
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:103011 original size:21 final size:22
Alignment explanation
Indices: 102975--103028 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
102965 GGCGTCCTCC
102975 ACAAAAAAAAACAAACAAAAAA
1 ACAAAAAAAAACAAACAAAAAA
*
102997 ACAAAAACAAA-AAACAAAAAA
1 ACAAAAAAAAACAAACAAAAAA
103018 A-AACAAAAAAA
1 ACAA-AAAAAAA
103029 GGGGTCCGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 17 0.59
22 10 0.34
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (22 bp):
ACAAAAAAAAACAAACAAAAAA
Found at i:103014 original size:25 final size:23
Alignment explanation
Indices: 102980--103026 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
102970 CCTCCACAAA
102980 AAAAAACAAACAAAAAAACAAAAAC
1 AAAAAAC-AA-AAAAAAACAAAAAC
103005 AAAAAACAAAAAAAAACAAAAA
1 AAAAAACAAAAAAAAACAAAAA
103027 AAGGGGTCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 13 0.59
24 2 0.09
25 7 0.32
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAACAAAAAAAAACAAAAAC
Found at i:103027 original size:25 final size:25
Alignment explanation
Indices: 102980--103028 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
102970 CCTCCACAAA
*
102980 AAAAAACAAACAAAAAAACAAAAAC
1 AAAAAACAAACAAAAAAAAAAAAAC
103005 AAAAAACAAA-AAAAAACAAAAAAA
1 AAAAAACAAACAAAAAA-AAAAAAA
103029 GGGGTCCGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAAAACAAACAAAAAAAAAAAAAC
Found at i:104531 original size:59 final size:59
Alignment explanation
Indices: 104466--104821 Score: 310
Period size: 59 Copynumber: 5.9 Consensus size: 59
104456 TTCCTCACCC
*
104466 TTCAAAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
104525 TTCAAAAGCCCACAAATTGGTGGCAAC-CTT-CAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTT
** * * * *
104582 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAC-CCTT
** * * ** * * *
104642 TTCTTTTGTAAGCTCACAACTCTATAGCACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCACC
1 TTC----AAAAGCCCACAAGTCGGTGGCA-TC-TTTTCC---AAAGCCCACAAGTCAGTGGCACC
104707 CTT
57 CTT
** * *
104710 TTCAAAAGCCCACAAGTTAGTGGCATCTCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCGGTGGCA--TCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTT
* *
104770 TT-AAAAGCCCACAAGTCAGTGGCAATC-TTT-AAAAGCCCACAAGTCAGTGGCA
1 TTCAAAAGCCCACAAGTCGGTGGC-ATCTTTTCCAAAGCCCACAAGTCAGTGGCA
104822 ACATTCAAAA
Statistics
Matches: 241, Mismatches: 42, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
56 22 0.09
57 50 0.21
58 6 0.02
59 64 0.27
60 10 0.04
61 21 0.09
64 34 0.14
65 5 0.02
66 6 0.02
68 6 0.02
69 17 0.07
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:104533 original size:30 final size:30
Alignment explanation
Indices: 104466--104821 Score: 255
Period size: 30 Copynumber: 11.8 Consensus size: 30
104456 TTCCTCACCC
* *
104466 TTCAAAAGCCCACAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
104495 TTCCAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* ** *
104525 TTCAAAAGCCCACAAATTGGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
104553 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
** * *
104582 TTCCGAAGCCCACAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
104611 TTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAC-CCTT
** * * * *
104642 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAC-CCTT
** *
104677 TTCCTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TT-C--AAAAGCCCACAAGTCAGTGGCACCCTT
* *
104710 TTCAAAAGCCCACAAGTTAGTGGCATCTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-CCCTT
*
104741 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
**
104770 TT-AAAAGCCCACAAGTCAGTGGCAATC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
104798 TT-AAAAGCCCACAAGTCAGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCA
104822 ACATTCAAAA
Statistics
Matches: 273, Mismatches: 40, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
27 21 0.08
28 52 0.19
29 52 0.19
30 66 0.24
31 33 0.12
32 1 0.00
33 6 0.02
34 18 0.07
35 23 0.08
36 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:104661 original size:35 final size:34
Alignment explanation
Indices: 104620--104694 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
104610 TTTCCAAAGT
* * *
104620 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTT-TAAGC
* *
104655 TCACAACTCTATAGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
104689 CCACAA
1 CCACAA
104695 GTTAGTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (34 bp):
CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
Found at i:104784 original size:28 final size:29
Alignment explanation
Indices: 104685--104867 Score: 205
Period size: 28 Copynumber: 6.3 Consensus size: 29
104675 TTTTCCTTTT
* *
104685 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTT-AA
* *
104715 AAGCCCACAAGTTAGTGGCATCTCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAAC-CTTTT-AA
104746 AAGCCCACAAGTCAGTGGCAACC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
*
104774 AAGCCCACAAGTCAGTGGCAATC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
* *
104802 AAGCCCACAAGTCAGTGGCAA-CATTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
* *
104830 AAGCACACAAGT-TGAT-GCAATCCTTTTAA
1 AAGCCCACAAGTCAG-TGGCAA-CCTTTTAA
104859 AAGCCCACA
1 AAGCCCACA
104868 CAAGTTGTTG
Statistics
Matches: 138, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
27 6 0.04
28 66 0.48
29 16 0.12
30 22 0.16
31 28 0.20
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.21
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTTAA
Found at i:104950 original size:52 final size:50
Alignment explanation
Indices: 104889--105173 Score: 310
Period size: 52 Copynumber: 5.9 Consensus size: 50
104879 CGTCTTCTTC
* *
104889 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTACC-T
* *
104941 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* * * *
104985 -AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
*
105036 TAAGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* *
105080 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
*
105131 TAAGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
105174 CATCTTTAAC
Statistics
Matches: 194, Mismatches: 21, Indels: 36
0.77 0.08 0.14
Matches are distributed among these distances:
43 72 0.37
45 1 0.01
46 2 0.01
47 3 0.02
48 1 0.01
50 3 0.02
52 112 0.58
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (50 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
Found at i:105053 original size:95 final size:95
Alignment explanation
Indices: 104890--105172 Score: 496
Period size: 95 Copynumber: 3.0 Consensus size: 95
104880 GTCTTCTTCT
* * * *
104890 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-ACCTTTAAGTCCAATGTA
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCTTTAAGTCCTATATC
104954 GCTGGCCTTGAATCAGCACATTGGCACCTCC
65 GCTGGCCTTGAATCAGCACATTGGCACCTCC
*
104985 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
105050 CTGGCCTTGAATCAGCACATTGGCACCTCC
66 CTGGCCTTGAATCAGCACATTGGCACCTCC
*
105080 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCTTAAGTCCTATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
105145 CTGGCCTTGAATCAGCACATTGGCACCT
66 CTGGCCTTGAATCAGCACATTGGCACCT
105173 TCATCTTTAA
Statistics
Matches: 180, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
94 2 0.01
95 178 0.99
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCTATATCG
CTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:105559 original size:13 final size:13
Alignment explanation
Indices: 105541--105565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105531 CATAAAGTGT
105541 TGTATCGATACAA
1 TGTATCGATACAA
105554 TGTATCGATACA
1 TGTATCGATACA
105566 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:105563 original size:33 final size:33
Alignment explanation
Indices: 105521--105587 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
105511 TTCAACGATT
105521 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
105554 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
105587 T
1 T
105588 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:105646 original size:13 final size:13
Alignment explanation
Indices: 105628--105652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105618 ATCACTTAAA
105628 TGTATCGATACAT
1 TGTATCGATACAT
105641 TGTATCGATACA
1 TGTATCGATACA
105653 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:105717 original size:52 final size:52
Alignment explanation
Indices: 105661--105789 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
105651 CACTGATCTT
* *
105661 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCACAGATGTATCGATACACTATAAAA
**
105713 TGTATCGATACATGCAGGCAAATTTGCACAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCACAGATGTATCGATACACTATAAAA
105765 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
105790 TCATATTTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCACAGATGTATCGATACACTATAAAA
Done.