Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003645.1 Hibiscus syriacus cultivar Beakdansim tig00007749_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 82463
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:9076 original size:46 final size:46
Alignment explanation
Indices: 9026--9249 Score: 349
Period size: 46 Copynumber: 4.9 Consensus size: 46
9016 TAAGTGAAAT
9026 GCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAG
*
9072 GCATGAAAGGATGTAATAAATGAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAG
*
9118 GCATGAAAGGATGTCATAAATAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAG
* * * *
9164 CCATAAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAG
* * * * *
9210 GCATAAAAAGATGCCATTAATGAAATGCATGAAAGGATGC
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGC
9250 CATAAATGAA
Statistics
Matches: 167, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 167 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAG
Found at i:9286 original size:46 final size:45
Alignment explanation
Indices: 9236--9500 Score: 431
Period size: 46 Copynumber: 5.8 Consensus size: 45
9226 TTAATGAAAT
* *
9236 GCATGAAAGGATGCCATAAATGAAATACATGACAATATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGA-AAGATGCATTAAG
* *
9282 GCATGAAAGGATGCCATAAATGAAATGTATGAAACGATGCATTAAT
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAA-GATGCATTAAG
9328 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAA-GATGCATTAAG
*
9374 GCATGAAAGGATGCCATAAATGAAATGCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAA-AGATGCATTAAG
9420 GCATGAAAGGATGCCATAAATGAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAA-GATGCATTAAG
*
9466 GCATGAAAGTATGCCATAAATGAAATGCATGAAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAG
9501 GATGTTGTAA
Statistics
Matches: 206, Mismatches: 10, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
45 3 0.01
46 203 0.99
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (45 bp):
GCATGAAAGGATGCCATAAATGAAATGCATGAAAGATGCATTAAG
Found at i:9286 original size:138 final size:136
Alignment explanation
Indices: 9031--9295 Score: 311
Period size: 138 Copynumber: 1.9 Consensus size: 136
9021 GAAATGCATG
* * * * *
9031 AAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGTAATAAATGAA
1 AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAAGATGCAATAAATGAA
* ** * * *
9096 ATGCATGAAATGATGCATTAAGGCATGAAAGGATGTCATAAATAAAATGCATGAAATGATGCATT
66 ATGCATGAAAGGATGCATTAA-G-ATGAAAACATGACATAAATAAAAGGCATGAAAGGATGCATT
9161 AAGCCATA
129 AAGCCATA
* *
9169 AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAAGATGCCATTAATGAA
1 AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAAGATGCAATAAATGAA
* *
9234 ATGCATGAAAGGATGCCA-TAA-ATGAAATACATGACA-ATATGCATTAAGGCATGAAAGGATGC
66 ATGCATGAAAGGATG-CATTAAGATGAAA-ACATGACATAAAT--A-AAAGGCATGAAAGGATGC
9296 CATAAATGAA
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
135 9 0.08
136 5 0.05
137 1 0.01
138 90 0.84
139 2 0.02
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (136 bp):
AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAAGATGCAATAAATGAA
ATGCATGAAAGGATGCATTAAGATGAAAACATGACATAAATAAAAGGCATGAAAGGATGCATTAA
GCCATA
Found at i:9329 original size:138 final size:134
Alignment explanation
Indices: 9187--9479 Score: 376
Period size: 138 Copynumber: 2.1 Consensus size: 134
9177 CCATAAATGA
9187 AATGCATGAAAGGATGCAT-T-AAGGCATAAAAAGATGCCATTAATGAAATGCATGAAAGGATGC
1 AATGCATGAAAGGATGCATATAAAGGCATAAAAAGATG-CATTAA-G----GCATGAAAGGATGC
* *
9250 CATAAATGAAATACATG-ACAATATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGTATGA
60 CATAAATGAAATACATGAAC-AGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGA
9314 AACGATGCATT
124 AACGATGCATT
* * *
9325 AATGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCA
1 AATGCATGAAAGGATG-CAT--AT-AAAGGCATAAAAAGATGCATTAAGGCATGAAAGGATGCCA
* * *
9390 TAAATGAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAT
62 TAAATGAAATACATGAACAGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAC
9455 GATGCATT
127 GATGCATT
* *
9463 AAGGCATGAAAGTATGC
1 AATGCATGAAAGGATGC
9480 CATAAATGAA
Statistics
Matches: 138, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
137 1 0.01
138 111 0.80
139 5 0.04
142 2 0.01
143 6 0.04
144 13 0.09
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.22
Consensus pattern (134 bp):
AATGCATGAAAGGATGCATATAAAGGCATAAAAAGATGCATTAAGGCATGAAAGGATGCCATAAA
TGAAATACATGAACAGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAACGATG
CATT
Found at i:9558 original size:117 final size:118
Alignment explanation
Indices: 9015--9622 Score: 474
Period size: 118 Copynumber: 5.2 Consensus size: 118
9005 AAATGAAGTT
* * *
9015 ATAAGTGAAATGCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAA
1 ATAAATGAAATGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
** * *
9080 GGATGTAATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGTC
66 GGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* * * *
9133 ATAAATAAAATGCATGAAATGATG-CAT---T--AA-GCCATAAAAGGATGCCATAAATGAAATG
1 ATAAATGAAATGCATGAAAGGATGCCATAAATGAAATG-CATGAAAGGATG-CAT---T--AAGG
* * *
9191 CATGAAAGGATG-CAT---T--AAGGCATAAAAAGATGCCATTAATGAAATGCATGAAAGGATGC
59 CATGAAAGGATGCCATAAATGAAATGCATGAAAGGATG-CATTAA-G----GCATGAAAGGATGC
9250 C
118 C
* * *
9251 ATAAATGAAATACATGACAA-TATG-CAT---T--AAGGCATGAAAGGATGCCA-TAA---ATGA
1 ATAAATGAAATGCATGA-AAGGATGCCATAAATGAAATGCATGAAAGGATG-CATTAAGGCATGA
* *
9305 AATGTATG--A-AACGATGCATTAATGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATG
64 AA-GGATGCCATAA--ATG-A--AATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATG
9367 -C
117 CC
* *
9368 AT---T--AAGGCATGAAAGGATGCCATAAATGAAATGCATGAACGGATGCATTAAGGCATGAAA
1 ATAAATGAAATGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
* *
9428 GGATGCCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGTATGCC
66 GGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
***
9481 ATAAATGAAATGCATGAAAGGATGTTGTAAATGAAAT-CATGAAAGGATGCATTAAGGCATGAAA
1 ATAAATGAAATGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
*
9545 TGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
66 GGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
* *
9598 ATAAATGAAATACATGAAATGATGC
1 ATAAATGAAATGCATGAAAGGATGC
9623 ATTAAAGCAT
Statistics
Matches: 399, Mismatches: 40, Indels: 103
0.74 0.07 0.19
Matches are distributed among these distances:
109 7 0.02
110 4 0.01
111 3 0.01
112 51 0.13
113 16 0.04
114 6 0.02
116 3 0.01
117 111 0.28
118 175 0.44
119 3 0.01
120 5 0.01
121 10 0.03
122 1 0.00
123 4 0.01
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (118 bp):
ATAAATGAAATGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAA
GGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
Found at i:9567 original size:163 final size:164
Alignment explanation
Indices: 9169--9654 Score: 609
Period size: 163 Copynumber: 3.0 Consensus size: 164
9159 TTAAGCCATA
* * *
9169 AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATAAAAAGATGCCATTAATGAA
1 AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAA
** * * ** *
9234 ATGCATGAAAGGATGCCA-TAA---ATGAAATACATGACA-ATATGCATTAAGGCATGAAAGGAT
66 ATGCATGAAAGGATG-CATTAAGGCATGAAA-GGATGCCATAAATG-A--AATACATGAAATGAT
* *
9294 GCCATAAATGAAATGTATGAAACGATG-CAT---T--AATGCATG
126 G-CAT---T-AAA-GCATGAAAGGATGCCATAAATGAAATGCATG
9333 AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAA
1 AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAA
* *
9398 ATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAATGATGCATT
66 ATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATACATGAAATGATGCATT
* *
9463 AAGGCATGAAAGTATGCCATAAATGAAATGCATG
131 AAAGCATGAAAGGATGCCATAAATGAAATGCATG
*** *
9497 AAAGGATGTTGTAAATGAAAT-CATGAAAGGATGCATTAAGGCATGAAATGATGCCATAAATGAA
1 AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAA
9561 ATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATACATGAAATGATGCATT
66 ATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATACATGAAATGATGCATT
9626 AAAGCATGAAAGGATGCCATAAATGAAAT
131 AAAGCATGAAAGGATGCCATAAATGAAAT
9655 TAACGAATAA
Statistics
Matches: 289, Mismatches: 22, Indels: 23
0.87 0.07 0.07
Matches are distributed among these distances:
158 10 0.03
159 5 0.02
160 1 0.00
162 1 0.00
163 137 0.47
164 119 0.41
166 6 0.02
167 10 0.03
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.22
Consensus pattern (164 bp):
AAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAA
ATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATACATGAAATGATGCATT
AAAGCATGAAAGGATGCCATAAATGAAATGCATG
Found at i:9581 original size:46 final size:45
Alignment explanation
Indices: 9492--9654 Score: 254
Period size: 46 Copynumber: 3.6 Consensus size: 45
9482 TAAATGAAAT
***
9492 GCATGAAAGGATGTTGTAAATGAAATCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATCATGAAAGGATGCATTAAG
*
9537 GCATGAAATGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAAT-CATGAAAGGATGCATTAAG
* *
9583 GCATGAAAGGATGCCATAAATGAAATACATGAAATGATGCATTAAA
1 GCATGAAAGGATGCCATAAATGAAAT-CATGAAAGGATGCATTAAG
9629 GCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
9655 TAACGAATAA
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 22 0.20
46 87 0.80
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (45 bp):
GCATGAAAGGATGCCATAAATGAAATCATGAAAGGATGCATTAAG
Found at i:9648 original size:20 final size:20
Alignment explanation
Indices: 9052--9642 Score: 189
Period size: 26 Copynumber: 25.7 Consensus size: 20
9042 TAAATGAAAT
* *
9052 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAA
*
9072 GCATGAAAGGATGTAATAAATGAAA
1 GCATGAAAGGATG-CAT---T-AAA
* *
9097 TGCATGAAATGATGCATTAAG
1 -GCATGAAAGGATGCATTAAA
9118 GCATGAAAGGATGTCATAAATAAAA
1 GCATGAAAGGATG-CAT---T-AAA
*
9143 TGCATGAAATGATGCATT-AA
1 -GCATGAAAGGATGCATTAAA
*
9163 GCCATAAAAGGATGCCATAAATGAAA
1 G-CATGAAAGGATG-CAT---T-AAA
*
9189 TGCATGAAAGGATGCATTAAG
1 -GCATGAAAGGATGCATTAAA
* *
9210 GCATAAAAAGATGCCATTAATGAAA
1 GCATGAAAGGATG-CA-T--T-AAA
9235 TGCATGAAAGGATGCCATAAATGAAA
1 -GCATGAAAGGATG-CAT---T-AAA
* * *
9261 TACATGACAA-TATGCATTAAG
1 -GCATGA-AAGGATGCATTAAA
9282 GCATGAAAGGATGCCATAAATGAAA
1 GCATGAAAGGATG-CAT---T-AAA
* * *
9307 TGTATGAAACGATGCATTAAT
1 -GCATGAAAGGATGCATTAAA
9328 GCATGAAAGGATGCCATAAATGAAA
1 GCATGAAAGGATG-CAT---T-AAA
*
9353 TGCATGAAAGGATGCATTAAG
1 -GCATGAAAGGATGCATTAAA
9374 GCATGAAAGGATGCCATAAATGAAA
1 GCATGAAAGGATG-CAT---T-AAA
* *
9399 TGCATGAACGGATGCATTAAG
1 -GCATGAAAGGATGCATTAAA
9420 GCATGAAAGGATGCCATAAATGAAA
1 GCATGAAAGGATG-CAT---T-AAA
* *
9445 TGCATGAAATGATGCATTAAG
1 -GCATGAAAGGATGCATTAAA
*
9466 GCATGAAAGTATGCCATAAATGAAA
1 GCATGAAAGGATG-CAT---T-AAA
*
9491 TGCATGAAAGGATG-TTGTAAA
1 -GCATGAAAGGATGCAT-TAAA
*
9512 TGAAATCATGAAAGGATGCATTAAG
1 -G----CATGAAAGGATGCATTAAA
*
9537 GCATGAAATGATGCCATAAATGAAA
1 GCATGAAAGGATG-CAT---T-AAA
*
9562 TGCATGAAAGGATGCATTAAG
1 -GCATGAAAGGATGCATTAAA
9583 GCATGAAAGGATGCCATAAATGAAA
1 GCATGAAAGGATG-CAT---T-AAA
* *
9608 TACATGAAATGATGCATTAAA
1 -GCATGAAAGGATGCATTAAA
9629 GCATGAAAGGATGC
1 GCATGAAAGGATGC
9643 CATAAATGAA
Statistics
Matches: 440, Mismatches: 55, Indels: 152
0.68 0.09 0.23
Matches are distributed among these distances:
19 3 0.01
20 138 0.31
21 55 0.12
22 12 0.03
24 13 0.03
25 65 0.15
26 151 0.34
27 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAA
Found at i:9648 original size:92 final size:93
Alignment explanation
Indices: 9026--9654 Score: 410
Period size: 92 Copynumber: 6.8 Consensus size: 93
9016 TAAGTGAAAT
* * **
9026 GCATGAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGTAATAA
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAAGGATGCATTAAAGCATGAAAGGATGCCATAA
*
9091 ATGAAATGCATGAAATGATG-CATTAAG
66 ATGAAATGCATGAAAGGATGCCATTAAG
* * *
9118 GCATGAAAGGATGTCATAAATAAAATGCATGAAATGATGCATT-AAGCCATAAAAGGATGCCATA
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAAGGATGCATTAAAG-CATGAAAGGATGCCATA
9182 AATGAAATGCATGAAAGGATG-CATTAAG
65 AATGAAATGCATGAAAGGATGCCATTAAG
* * * * ** *
9210 GCATAAAAAGATGCCATTAATGAAATGCATGAAAGGATGCCA-T-AA--ATGAAATACATGACA-
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAAGGATG-CATTAAAGCATGAAA-GGATGCCAT
* *
9270 ATATGCATTAAGGCATGAAAGGATGCCA-TAA-
64 AAATG-A--AATGCATGAAAGGATGCCATTAAG
*
9301 --ATGAAATGTATG--A-AACGATGCATTAATGCATGAAAGGATGCCATAAATGAAATGCATGAA
1 GCATGAAA-GGATGTCATAA--ATG-A--AATGCATGAAAGGATG-CAT---T-AAA-GCATGAA
* *
9361 AGGATG-CAT---T--AAGGCATGAAAGGATGCCATAAATGAAAT
54 AGGATGCCATAAATGAAATGCATGAAAGGATGCCAT---T--AAG
* * *
9400 GCATGAACGGATG-CAT---T--AAGGCATGAAAGGATGCCATAAATGAAATGCATGAAATGATG
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAAGGATG-CAT---T-AAA-GCATGAAAGGATG
* * *
9459 -CAT---T--AAGGCATGAAAGTATGCCATAAATGAAAT
60 CCATAAATGAAATGCATGAAAGGATGCCAT---T--AAG
** * *
9492 GCATGAAAGGATGTTGTAAATGAAAT-CATGAAAGGATGCATTAAGGCATGAAATGATGCCATAA
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAAGGATGCATTAAAGCATGAAAGGATGCCATAA
9556 ATGAAATGCATGAAAGGATG-CATTAAG
66 ATGAAATGCATGAAAGGATGCCATTAAG
* * *
9583 GCATGAAAGGATGCCATAAATGAAATACATGAAATGATGCATTAAAGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGTCATAAATGAAATGCATGAAAGGATGCATTAAAGCATGAAAGGATGCCATAA
9648 ATGAAAT
66 ATGAAAT
9655 TAACGAATAA
Statistics
Matches: 447, Mismatches: 43, Indels: 94
0.77 0.07 0.16
Matches are distributed among these distances:
87 1 0.00
88 1 0.00
89 17 0.04
90 10 0.02
91 40 0.09
92 306 0.68
93 7 0.02
95 1 0.00
96 9 0.02
97 28 0.06
98 6 0.01
99 2 0.00
100 7 0.02
101 12 0.03
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (93 bp):
GCATGAAAGGATGTCATAAATGAAATGCATGAAAGGATGCATTAAAGCATGAAAGGATGCCATAA
ATGAAATGCATGAAAGGATGCCATTAAG
Found at i:14729 original size:21 final size:21
Alignment explanation
Indices: 14705--14746 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14695 TAATTAAGAA
*
14705 TCAAAGAGCTTTACTTCAAAG
1 TCAAAGAGCCTTACTTCAAAG
* *
14726 TCAAGGCGCCTTACTTCAAAG
1 TCAAAGAGCCTTACTTCAAAG
14747 CCATAGTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (21 bp):
TCAAAGAGCCTTACTTCAAAG
Found at i:19266 original size:21 final size:21
Alignment explanation
Indices: 19213--19266 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
19203 TTAAATTTTT
*
19213 CTTTTA-TCTTTCATTTTTAA
1 CTTTTACTCTTTCAGTTTTAA
*
19233 CTTTTTCTCTTTCAGTTTTAA
1 CTTTTACTCTTTCAGTTTTAA
*
19254 CTTTTACTTTTTC
1 CTTTTACTCTTTC
19267 TCTCTCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.15, C:0.19, G:0.02, T:0.65
Consensus pattern (21 bp):
CTTTTACTCTTTCAGTTTTAA
Found at i:26518 original size:30 final size:31
Alignment explanation
Indices: 26462--26538 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
26452 CCCAAAATAT
** *
26462 AACTTTTAAAAATTTATATTTTTAATCCTTA
1 AACTTTTAAAAATTTATAAATTTAATCCCTA
*
26493 AACTTTTATAAATTTA-AAATTTAATCCCTA
1 AACTTTTAAAAATTTATAAATTTAATCCCTA
* *
26523 AA-TTTTCAAATTTTAT
1 AACTTTTAAAAATTTAT
26539 TTTTCCGTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 10 0.26
30 13 0.34
31 15 0.39
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.49
Consensus pattern (31 bp):
AACTTTTAAAAATTTATAAATTTAATCCCTA
Found at i:26867 original size:7 final size:7
Alignment explanation
Indices: 26855--26880 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
26845 AAAGGACCGT
26855 TTTTCTA
1 TTTTCTA
26862 TTTTCTA
1 TTTTCTA
26869 TTTTCTA
1 TTTTCTA
26876 TTTTC
1 TTTTC
26881 AATCGCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCTA
Found at i:33344 original size:30 final size:29
Alignment explanation
Indices: 33305--33362 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
33295 TTAACAAAAA
* *
33305 TGATGATTTTGGAATATATTAATAGTCGGG
1 TGATCATTTTAGAAT-TATTAATAGTCGGG
* *
33335 TGATCATTTTATAATTTTTAATAGTCGG
1 TGATCATTTTAGAATTATTAATAGTCGG
33363 ATGACTCAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (29 bp):
TGATCATTTTAGAATTATTAATAGTCGGG
Found at i:37213 original size:17 final size:18
Alignment explanation
Indices: 37181--37218 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
37171 AAATAATTAA
*
37181 ATAAAATACTAATAAAAT
1 ATAAAATACAAATAAAAT
37199 ATAAAATA-AAATAAAAT
1 ATAAAATACAAATAAAAT
37216 ATA
1 ATA
37219 CCTTAAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAATACAAATAAAAT
Found at i:38353 original size:182 final size:182
Alignment explanation
Indices: 38035--38696 Score: 1020
Period size: 182 Copynumber: 3.6 Consensus size: 182
38025 GTCGATACAA
* * *
38035 ATAAAAATGTATCGATCCATATCTATATAACAGGTAAAAATATGACAAAACTGGTCTCGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGA
* * * *
38100 CCAAACCGGTAAAGCACTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACA
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
*
38165 TTTGGAATTTAAAAGACAAGCAGTAATAGCACCTATAAAGTGTCGATACTTT
131 TTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * * * * **
38217 CTAAAAATGTATCGATCCATAACAATATAACATGTAGAAATATGATAAAATCGGTCTC-ACGGTG
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGA-AATG
* * * *
38281 ACAAAACCGGTAAAGCGCTACCGGATATGTTAAAAGTGTCGATAGTTTAGTATAAGTATCGGCAC
65 ACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACAC
*
38346 TTTTGGAATTTAAAAGACAAGCAGTAATAGTGCCTATAAAGTGTCGATACTTT
130 TTTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
*
38399 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGA
* * * *
38464 CAAAACTGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATATAAATATCGACACT
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
* *
38529 TTTGGAATTTAAAAGAAAAGCAGTTATAGCGCCTATAAAGTGTCGATACTTT
131 TTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * *
38581 ATAAAAACGTATCGATCCATAATAATATAACTGGTAAAAATATGACAAAACCGGTCTCGAAATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGA
* *
38646 AAAAACCGGTAAAGCGATACCGGATATGTTGAAAGTGTCGATACTTTAATA
66 CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATA
38697 AGTACGCGTA
Statistics
Matches: 431, Mismatches: 47, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
181 1 0.00
182 429 1.00
183 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (182 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGA
CAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACT
TTTGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
Found at i:41388 original size:24 final size:24
Alignment explanation
Indices: 41361--41426 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
41351 AGCTCGTATA
41361 AATTTGCACCGTAGTGCCACGTAG
1 AATTTGCACCGTAGTGCCACGTAG
** * *
41385 AATTTATACCGAAGTGCCGCGTAG
1 AATTTGCACCGTAGTGCCACGTAG
*
41409 AA-ATGCACCGTAGTGCCA
1 AATTTGCACCGTAGTGCCA
41427 TATAAGATTG
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 11 0.33
24 22 0.67
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (24 bp):
AATTTGCACCGTAGTGCCACGTAG
Found at i:41866 original size:43 final size:41
Alignment explanation
Indices: 41804--41884 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
41794 TCCCATAAAC
** * *
41804 ATATATATCATTTGATTCATGTCTTATTCTTATATCATCAT
1 ATATATATCATTTGATTCATCACTTAATCTCATATCATCAT
*
41845 ATATATATCATCTATGTTTCATCACTTAATCTCATATCAT
1 ATATATATCAT-T-TGATTCATCACTTAATCTCATATCAT
41885 ATAACATGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 11 0.33
42 1 0.03
43 21 0.64
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (41 bp):
ATATATATCATTTGATTCATCACTTAATCTCATATCATCAT
Found at i:42689 original size:13 final size:13
Alignment explanation
Indices: 42671--42720 Score: 84
Period size: 13 Copynumber: 3.8 Consensus size: 13
42661 ATTCCTTTAG
42671 TTTTTCCAC-TAAC
1 TTTTTCC-CTTAAC
42684 TTTTTCCCTTAAC
1 TTTTTCCCTTAAC
42697 TTTTTCCCTTAAC
1 TTTTTCCCTTAAC
42710 TTTTTCCCTTA
1 TTTTTCCCTTA
42721 TTTATTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
12 1 0.03
13 35 0.97
ACGTcount: A:0.16, C:0.30, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTTCCCTTAAC
Found at i:46911 original size:31 final size:31
Alignment explanation
Indices: 46822--46949 Score: 134
Period size: 31 Copynumber: 4.1 Consensus size: 31
46812 AGAGTCGAGG
*
46822 GTTTACCTATGTTCTACGGAACATATGGATA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* *
46853 GTTTTACCTATG-TCTTTC-GAGATATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* *
46885 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
46916 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
46947 GTT
1 GTT
46950 ACCGAGGATC
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
31 53 0.67
32 26 0.33
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:46969 original size:30 final size:30
Alignment explanation
Indices: 46908--47004 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
46898 CTAAGGAACA
* * ***
46908 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
46939 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* * *
46969 TCTGTATAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
*
46999 TCTGGA
1 TATGGA
47005 TAGGTCCTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
30 48 0.84
31 9 0.16
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Found at i:50199 original size:24 final size:24
Alignment explanation
Indices: 50172--50237 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
50162 AACTCGTATA
50172 AATTTGCACCGTAGTGCCACGTAG
1 AATTTGCACCGTAGTGCCACGTAG
* **
50196 AATTTGCACCGAAGTGCTGCGTAG
1 AATTTGCACCGTAGTGCCACGTAG
*
50220 AA-ATGCACCGTAGTGCCA
1 AATTTGCACCGTAGTGCCA
50238 TATACGATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
23 12 0.34
24 23 0.66
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (24 bp):
AATTTGCACCGTAGTGCCACGTAG
Found at i:50677 original size:43 final size:41
Alignment explanation
Indices: 50615--50695 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
50605 TCCCACAAAC
** * *
50615 ATATATATCATTTGATTCATGTCTTATTCTTATATCATCAT
1 ATATATATCATTTGATTCATCACTTAATCTCATATCATCAT
*
50656 ATATATATCATCTATGTTTCATCACTTAATCTCATATCAT
1 ATATATATCAT-T-TGATTCATCACTTAATCTCATATCAT
50696 ATAACATGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 11 0.33
42 1 0.03
43 21 0.64
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (41 bp):
ATATATATCATTTGATTCATCACTTAATCTCATATCATCAT
Found at i:52354 original size:18 final size:18
Alignment explanation
Indices: 52331--52365 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52321 AAATATGAAG
52331 AAGAAAAGATAGAGGAAT
1 AAGAAAAGATAGAGGAAT
*
52349 AAGAAAATATAGAGGAA
1 AAGAAAAGATAGAGGAA
52366 ATGAGGAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (18 bp):
AAGAAAAGATAGAGGAAT
Found at i:54887 original size:201 final size:200
Alignment explanation
Indices: 54387--55347 Score: 1199
Period size: 201 Copynumber: 4.8 Consensus size: 200
54377 GTAAATAGAT
*
54387 GTGTCGATACATTTATACAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* ** * ** *
54452 GGT-AATTTTCAATTTAACCGGTATAAATATACTTGTTTTATGAGAGAATAGGTTTATATAATGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCAACATAATGT
* * * * * * *
54516 ATCGACACTTGTGGAAATTGTGTCGATCCTTTTTGTCCAAAATGAATGCGCAAAAGAGGTACACA
131 ATCGACACTT-TTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACA
54581 CATAAA
195 CATAAA
* * *
54587 ATGTCGATAC----ATAAAAAGTCTTGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
54648 GGT-AATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCAACATAATG
66 GGTAAATTTT-CAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCAACATAATG
* * *
54712 TATCGACACTTTTGAAGTTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAACTAGGTGCAC
130 TATCGACACTTTTGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCAC
54777 ACATAAA
194 ACATAAA
* *
54784 GTGTCGATGCATTTATACAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
54849 GGTAAATTTTTAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGATCTATATAATGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCAACATAATGT
* *
54914 ATCGACACTTGTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
131 ATCGACACTT-TTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACA
54979 CATAAA
195 CATAAA
* * *
54985 ATGTCGATAAATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
55050 GGTAAATTTCCAATATAACTGGTATAAATATACCGATTTAAT-T-AGAAATCGATCAACATAATG
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAG-AATAGGTCAACATAATG
* * * *
55113 TATTGATACTTTTTAAATTTGTGTTGATACTTTTTGTCCAGAATGAATG-CC-AACGAGGTGCAC
130 TATCGACAC-TTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCAC
*
55176 GCATAAA
194 ACATAAA
* * * * * ** *
55183 GTGTCAATACATTTAAAAAAAATATCAATCCTAAAAACATCGAAACTGATCATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
55248 GGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTAAT-T-AGAAAAACGGTCAACATAAT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAG-AATA-GGTCAACATAAT
* * *
55311 GTATCGACAGTTTTTAAATTTGTATCGATACCTTTTT
129 GTATCGACA-CTTTTGAATTTGTGTCGATA-CTTTTT
55348 AAATTTCGTG
Statistics
Matches: 671, Mismatches: 77, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
196 61 0.09
197 111 0.17
198 116 0.17
199 39 0.06
200 71 0.11
201 262 0.39
202 11 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCAACATAATGT
ATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACAC
ATAAA
Found at i:55312 original size:399 final size:398
Alignment explanation
Indices: 54387--55347 Score: 1295
Period size: 399 Copynumber: 2.4 Consensus size: 398
54377 GTAAATAGAT
54387 GTGTCGATACATTTATACAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATACAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* ** *
54452 GGT-AATTTTCAATTTAACCGGTATAAATATACTTGTTTTATGAGAGAATAGGTTTATATAATGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTATATAATGT
* * * *
54516 ATCGACACTTGTGGAAATTGTGTCGATCCTTTTTGTCCAAAATGAATGCGCAAAAGAGGTACACA
131 ATCGACACTTGTTGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAAGAGGTACACA
* *
54581 CATAAAATGTCGATACATAAAAAGTCTTGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
196 CATAAAATGTCGATACATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
* ** * * * *
54646 TAGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCAACATAAT
261 TAGGTAAATTTCCAATATAACCGGTATAAATATACCGATTTAATGTGAGAATAGATCAACATAAT
* *
54711 GTATCGACACTTTTGAAGTTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAACTAGGTGCA
326 GTATCGACACTTTTGAAATTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAACGAGGTGCA
54776 CACATAAA
391 CACATAAA
*
54784 GTGTCGATGCATTTATACAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATACAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
54849 GGTAAATTTTTAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGATCTATATAATGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTATATAATGT
* ** * *
54914 ATCGACACTTGTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
131 ATCGACACTTGTTGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAAGAGGTACACA
* *
54979 CATAAAATGTCGATAAATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTATAAT
196 CATAAAATGTCGAT--A--CATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
55044 GTAATAGGTAAATTTCCAATATAACTGGTATAAATATACCGATTTAAT-T-AGAAATCGATCAAC
257 GTAATAGGTAAATTTCCAATATAACCGGTATAAATATACCGATTTAATGTGAG-AATAGATCAAC
* * * ** *
55107 ATAATGTATTGATACTTTTTAAATTTGTGTTGATACTTTTTGTCCAGAATGAATG-CC-AACGAG
321 ATAATGTATCGACACTTTTGAAATTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAACGAG
*
55170 GTGCACGCATAAA
386 GTGCACACATAAA
* * * * * * ** *
55183 GTGTCAATACATTTAAAAAAAATATCAATCCTAAAAACATCGAAACTGATCATTATAATGTAATA
1 GTGTCGATACATTTATACAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
55248 GGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTAATTAGA-AAAACGGTCAACATAATG
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATA-GGTCTATATAATG
* * * *
55312 TATCGACAGTTTTTAAATTTGTATCGATACCTTTTT
130 TATCGACACTTGTTGAATTTGTGTCGATA-CTTTTT
55348 AAATTTCGTG
Statistics
Matches: 495, Mismatches: 61, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
397 67 0.14
398 128 0.26
399 148 0.30
400 11 0.02
401 58 0.12
402 83 0.17
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (398 bp):
GTGTCGATACATTTATACAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTATATAATGT
ATCGACACTTGTTGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAAGAGGTACACA
CATAAAATGTCGATACATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
TAGGTAAATTTCCAATATAACCGGTATAAATATACCGATTTAATGTGAGAATAGATCAACATAAT
GTATCGACACTTTTGAAATTTGTGTCAATACATTTTGTCCAGAATGAATGCCCAAACGAGGTGCA
CACATAAA
Found at i:55336 original size:21 final size:22
Alignment explanation
Indices: 55310--55353 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
55300 GTCAACATAA
*
55310 TGTATCGACA-GTTTTTAAATT
1 TGTATCGACACCTTTTTAAATT
*
55331 TGTATCGATACCTTTTTAAATT
1 TGTATCGACACCTTTTTAAATT
55353 T
1 T
55354 CGTGTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (22 bp):
TGTATCGACACCTTTTTAAATT
Found at i:56011 original size:2 final size:2
Alignment explanation
Indices: 56004--56055 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
55994 ATGGGGAAGG
56004 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56046 AT AT AT AT AT
1 AT AT AT AT AT
56056 CTGGATACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56897 original size:3 final size:3
Alignment explanation
Indices: 56866--56915 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
56856 CAAGCGGTCA
* * * *
56866 ATG AAG ATG ACG ATG AAG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
56914 AT
1 AT
56916 CCAAACAAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.40, C:0.02, G:0.32, T:0.26
Consensus pattern (3 bp):
ATG
Found at i:59736 original size:28 final size:26
Alignment explanation
Indices: 59705--59768 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 26
59695 ATGTGATTAG
59705 ATGAGAAATGAACATGAGATATACGAAT
1 ATGAGAAATG-ACATG-GATATACGAAT
* * *
59733 ATGAATGAAATGATATGGTTATATGAAT
1 ATG-A-GAAATGACATGGATATACGAAT
59761 ATGAGAAA
1 ATGAGAAA
59769 AGGTATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 4 0.13
27 1 0.03
28 15 0.48
29 5 0.16
30 6 0.19
ACGTcount: A:0.48, C:0.03, G:0.22, T:0.27
Consensus pattern (26 bp):
ATGAGAAATGACATGGATATACGAAT
Found at i:60013 original size:31 final size:32
Alignment explanation
Indices: 59928--60020 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 32
59918 AATAGAGGGT
* *
59928 TTACCTATGTTTTACGGAACATATGGACAAAA
1 TTACCTATGTTCTAAGGAACATATGGACAAAA
*** * **
59960 TTACCTATG-TCTTTTGAGACATATGGATAGTA
1 TTACCTATGTTCTAAGGA-ACATATGGACAAAA
59992 -TACCTATGTTCTAAGGAACATATGGACAA
1 TTACCTATGTTCTAAGGAACATATGGACAA
60021 TTTGCCTAGG
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
31 22 0.47
32 25 0.53
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (32 bp):
TTACCTATGTTCTAAGGAACATATGGACAAAA
Found at i:64951 original size:20 final size:20
Alignment explanation
Indices: 64926--64978 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
64916 GACCAACAAA
64926 TTCGCAACGCGAACTCCAAT
1 TTCGCAACGCGAACTCCAAT
* **
64946 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ACTCCAAT
64966 TTCGCAACGCGAA
1 TTCGCAACGCGAA
64979 TTTGTAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (20 bp):
TTCGCAACGCGAACTCCAAT
Found at i:65010 original size:20 final size:20
Alignment explanation
Indices: 64987--65126 Score: 78
Period size: 20 Copynumber: 7.0 Consensus size: 20
64977 AATTTGTAAA
64987 TCGCAACACAGAAG-CAAAAT
1 TCGCAACACAGAAGTC-AAAT
*
65007 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
65027 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* **
65047 TCGTAATGC-GAATTTGT-AAA-
1 TCGCAACACAGAA---GTCAAAT
* *
65067 TCGCAACACATAAGTTAAAT
1 TCGCAACACAGAAGTCAAAT
* *
65087 TCGCAACGC-GATAGCCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
65107 TCGCAACGC-GAAAGTCAAAT
1 TCGCAACACAG-AAGTCAAAT
65127 GTTTTTATGC
Statistics
Matches: 93, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.02
19 8 0.09
20 73 0.78
21 8 0.09
22 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.19
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:65010 original size:40 final size:39
Alignment explanation
Indices: 64966--65097 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 39
64956 AGTTTCCAAT
*
64966 TTCGCAACGCGAATTTGTAAATCGCAACACAGAAGCAAAA
1 TTCGCAACGCGAATTTGTAAATCGCAACACAAAAGC-AAA
*
65006 TTCGCAACGCG-A-TAGTCAAATTCGCAACACAAAAGTCAAA
1 TTCGCAACGCGAATTTGT-AAA-TCGCAACACAAAAG-CAAA
* * * *
65046 TTCGTAATGCGAATTTGTAAATCGCAACACATAAGTTAAA
1 TTCGCAACGCGAATTTGTAAATCGCAACACAAAAG-CAAA
65086 TTCGCAACGCGA
1 TTCGCAACGCGA
65098 TAGCCAAATT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
38 3 0.04
39 4 0.05
40 63 0.81
41 5 0.06
42 3 0.04
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (39 bp):
TTCGCAACGCGAATTTGTAAATCGCAACACAAAAGCAAA
Found at i:65030 original size:80 final size:80
Alignment explanation
Indices: 64966--65126 Score: 250
Period size: 80 Copynumber: 2.0 Consensus size: 80
64956 AGTTTCCAAT
64966 TTCGCAACGCGAATTTGTAAATCGCAACACAGAAGCAAAATTCGCAACGCGATAGTCAAATTCGC
1 TTCGCAACGCGAATTTGTAAATCGCAACACAGAAGCAAAATTCGCAACGCGATAGTCAAATTCGC
65031 AACACAAAAGTCAAA
66 AACACAAAAGTCAAA
* * * ** *
65046 TTCGTAATGCGAATTTGTAAATCGCAACACATAAGTTAAATTCGCAACGCGATAGCCAAATTCGC
1 TTCGCAACGCGAATTTGTAAATCGCAACACAGAAGCAAAATTCGCAACGCGATAGTCAAATTCGC
* *
65111 AACGCGAAAGTCAAA
66 AACACAAAAGTCAAA
65126 T
1 T
65127 GTTTTTATGC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.20
Consensus pattern (80 bp):
TTCGCAACGCGAATTTGTAAATCGCAACACAGAAGCAAAATTCGCAACGCGATAGTCAAATTCGC
AACACAAAAGTCAAA
Found at i:65111 original size:40 final size:39
Alignment explanation
Indices: 64987--65113 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
64977 AATTTGTAAA
* *
64987 TCGCAACACAGAAGCAAAATTCGCAACGCGATAGTCAAAT
1 TCGCAACACAAAAGTAAAATTCGCAACGCGATAG-CAAAT
* * * * *
65027 TCGCAACACAAAAGTCAAATTCGTAATGCGAATTTGTAAA-
1 TCGCAACACAAAAGTAAAATTCGCAACGCG-A-TAGCAAAT
* *
65067 TCGCAACACATAAGTTAAATTCGCAACGCGATAGCCAAAT
1 TCGCAACACAAAAGTAAAATTCGCAACGCGATAG-CAAAT
65107 TCGCAAC
1 TCGCAAC
65114 GCGAAAGTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 2 0.03
39 4 0.06
40 58 0.83
41 4 0.06
42 2 0.03
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.20
Consensus pattern (39 bp):
TCGCAACACAAAAGTAAAATTCGCAACGCGATAGCAAAT
Found at i:65624 original size:14 final size:14
Alignment explanation
Indices: 65579--65624 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65569 AAGAAACCCT
*
65579 AAATCGCAACACCA
1 AAATCGCAACACGA
* *
65593 AAACCGCAACACGG
1 AAATCGCAACACGA
*
65607 AAATCGCAACGCGA
1 AAATCGCAACACGA
65621 AAAT
1 AAAT
65625 GAAAATCGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
AAATCGCAACACGA
Found at i:67660 original size:12 final size:12
Alignment explanation
Indices: 67643--67684 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
67633 TTTTTCGGCA
*
67643 TTATTTATTTAT
1 TTATTTATTAAT
*
67655 TTATTTACTAAT
1 TTATTTATTAAT
*
67667 TTATGTATTAAT
1 TTATTTATTAAT
67679 TTATTT
1 TTATTT
67685 TCAGCGGCCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TTATTTATTAAT
Found at i:67869 original size:21 final size:21
Alignment explanation
Indices: 67846--67926 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
67836 CAAGAAGTAT
*
67846 CTCATATCGTTCAAGAGGCCT
1 CTCATATCGTTCAAGAGGCCC
* * *
67867 CTCTTATC-ATCGAAGAAGCCC
1 CTCATATCGTTC-AAGAGGCCC
** *
67888 CTCCCACCGTTCAAGAGGCCC
1 CTCATATCGTTCAAGAGGCCC
*
67909 CT-GTCATCGTTCAAGAGG
1 CTCAT-ATCGTTCAAGAGG
67927 TCTCGCCCGC
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 2 0.04
21 41 0.91
22 2 0.04
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (21 bp):
CTCATATCGTTCAAGAGGCCC
Found at i:69346 original size:61 final size:64
Alignment explanation
Indices: 69254--69393 Score: 189
Period size: 66 Copynumber: 2.2 Consensus size: 64
69244 TTTTACATTG
69254 AAAGTTGATTTGTTTAATTGATGAGGAAATAAG-A-T-TTATTTT-TTAATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTATTTTCTTAATTAATTGATTTGTA
* * * **
69314 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTATTATTTT-CTTAATTAATTGATTTGT
69379 A
64 A
69380 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
69394 GTTTCTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 17 0.25
61 14 0.20
62 1 0.01
63 1 0.01
64 6 0.09
66 30 0.43
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (64 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTATTTTCTTAATTAATTGATTTGTA
Found at i:69831 original size:18 final size:18
Alignment explanation
Indices: 69808--69844 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
69798 CGAAATTTAT
69808 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
69826 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
69844 A
1 A
69845 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:70295 original size:20 final size:20
Alignment explanation
Indices: 70272--70313 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
70262 TGTACAACAT
*
70272 AAAAGTTAAATTCGCAACGC
1 AAAAGTCAAATTCGCAACGC
70292 AAAAGTCAAATTCGCAACGC
1 AAAAGTCAAATTCGCAACGC
70312 AA
1 AA
70314 TTTTCGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (20 bp):
AAAAGTCAAATTCGCAACGC
Found at i:70689 original size:18 final size:18
Alignment explanation
Indices: 70666--70701 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
70656 AAGCCGGTTG
*
70666 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
70684 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
70702 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:74005 original size:20 final size:20
Alignment explanation
Indices: 73940--74026 Score: 81
Period size: 20 Copynumber: 4.3 Consensus size: 20
73930 TTGAAATTCA
*
73940 GTTGCGAATTTGA-AATTCCGC
1 GTTGCGAATTTGACTA-T-CGC
* * *
73961 GTTGCGAAATTGACT-TTGT
1 GTTGCGAATTTGACTATCGC
73980 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
*
74000 GTTGCGAATTTGACGTAT-GT
1 GTTGCGAATTTGAC-TATCGC
74020 GTTGCGA
1 GTTGCGA
74027 TTTACAGATT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 15 0.27
20 25 0.45
21 15 0.27
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.37
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGC
Found at i:74013 original size:39 final size:41
Alignment explanation
Indices: 73940--74026 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 41
73930 TTGAAATTCA
*
73940 GTTGCGAATTTGAAATTCCGCGTTGCGAAATTGAC-TTTGT
1 GTTGCGAATTTGAAATTCCGCGTTGCGAAATTGACGTATGT
* *
73980 GTTGCGAATTTG-ACTAT-CGCGTTGCGAATTTGACGTATGT
1 GTTGCGAATTTGAAAT-TCCGCGTTGCGAAATTGACGTATGT
74020 GTTGCGA
1 GTTGCGA
74027 TTTACAGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 18 0.43
40 24 0.57
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.37
Consensus pattern (41 bp):
GTTGCGAATTTGAAATTCCGCGTTGCGAAATTGACGTATGT
Found at i:74070 original size:21 final size:21
Alignment explanation
Indices: 74046--74088 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
74036 TTGTGTTGCC
74046 AATTTGGAAAATCACAACGCG
1 AATTTGGAAAATCACAACGCG
* *
74067 AATTTGGAAAATCGCAATGCG
1 AATTTGGAAAATCACAACGCG
74088 A
1 A
74089 TTTACATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (21 bp):
AATTTGGAAAATCACAACGCG
Found at i:77239 original size:199 final size:200
Alignment explanation
Indices: 76581--77944 Score: 1747
Period size: 199 Copynumber: 6.8 Consensus size: 200
76571 TAGGTAAACA
* *
76581 AAAGTGTCGATAAATTTATTAAAAGTATCGATCCCAAAAACATCGGAACAAATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* * ** ** * * *
76646 ATAGGTAAATTTCCAATATAATTGGTAG-GTTAATACCAGTTTAATTAGAAAACATGTCAACATA
66 ATAGGTAAATTTCAAATGTAACCGGTAGAAAT-ATACC-GTTTAATTAGAAAATAGGTCTACATA
* * * * *
76710 ATGTATCGACACTTTTTAAATTTGTGTCGATATTTTTTGTCCAGAATGAATGCTCAACCGAGGTT
129 ATGTATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTG
76775 CACGCAT
194 CACGCAT
* * * *
76782 AAAGTGTCGATACATTTATTAAAAGTATAGATCCCAAAAATATCAAAACAAATAATTATAATGCA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* ** * * * * * * **
76847 ATAAGTAAATTTTTAATGAAACCAGTAGATATATATCAGTTTAATTAGAAAACATGTAAACATAA
66 ATAGGTAAATTTCAAATGTAACCGGTAGAAATATA-CCGTTTAATTAGAAAATAGGTCTACATAA
* * * * * *
76912 TGTATTGACACTTTTTAAATTTATGTCGATACTTTTGGTCCAGAATGAATGCTCAACCGAGGTGC
130 TGTATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGC
76977 ACGCAT
195 ACGCAT
* * * * * *
76983 AAAGTGTCAATACATTTATTAAAAGTAGCCATCCCAAAAACATCGAAACAGATAATTACAATATA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
*
77048 ATAGGTAAATTTCAAATGTAACCGGTAGAAATATACCGATTAATTAGAAAATAGGTCTACATAAT
66 ATAGGTAAATTTCAAATGTAACCGGTAGAAATATACCGTTTAATTAGAAAATAGGTCTACATAAT
* * *
77113 GTATCGACACTTTTGCAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-TCAAACGGGGTGCA
131 GTATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCA
*
77177 CACAT
196 CGCAT
* *
77182 AAAGTGTCGATACATTTATTAAAAGTAGCGATCCCAAAAACATCGAAACAAATAATTACAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* * *
77247 ATAGGTAAATTTCAAATGTAACCGATAGAAATATACCGGTTAATTAGAAAATAGGTATACATAAT
66 ATAGGTAAATTTCAAATGTAACCGGTAGAAATATACCGTTTAATTAGAAAATAGGTCTACATAAT
* *
77312 GTATCGACACTTTTGCAATTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAACGGGGTGCA
131 GTATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCA
*
77376 CACAT
196 CGCAT
* * * *
77381 TAAGTGTCGATACATTTATTAAAAGTTTCAATCCCAAAAACATCGAAACATATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* * * * **
77446 ATAGGTAAATTTCTAATGTAACCGATAGATATATATCGGTTTAATTAGAAAA-AGGTAAACATAA
66 ATAGGTAAATTTCAAATGTAACCGGTAGAAATATA-CCGTTTAATTAGAAAATAGGTCTACATAA
* *
77510 TGTATCGACACTTTTGAAA-TTGTGTCGATACTTGTTGTCCAGAATGAATGCCCAACCGAGGTGC
130 TGTATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGC
77574 ACGCAT
195 ACGCAT
* * * * *
77580 AAAATGTCGATACATTTATTAAAAGTAGCGATCCCAAAAACATTGAAATAGATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* * *
77645 ATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATTGGTCTACATAAT
66 ATAGGTAAATTTCAAATGTAACCGGTAGAAATATACCGTTTAATTAGAAAATAGGTCTACATAAT
* * * *
77710 GTATCGACACTTTTAAAATTTGTGTCGATACGTTTTGTCCATAATGAATGCCC-AACGGGGTGCA
131 GTATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCA
77774 CGCAT
196 CGCAT
** *
77779 AAAGTGTCGATACA-TT-TTAAAATGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGT
1 AAAGTGTCGATACATTTATTAAAA-GTATCGATCCCAAAAACATCGAAACAAATAATTATAATGT
* * * * * * * * *
77842 AATAAGTAAA-TTAACAATGTAACTGGTATAAATTTATCGGTTTTATGAGAAAATAGGTCTGCAT
65 AATAGGTAAATTTCA-AATGTAACCGGTAGAAATATA-CCGTTTAATTAGAAAATAGGTCTACAT
* * *
77906 AATGTATCGACACTTTTTAAATTTGTATCGATATTTTTT
128 AATGTATCGACACTTTTGAAATTTGTGTCGATACTTTTT
77945 TAATTACGTG
Statistics
Matches: 1033, Mismatches: 121, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
197 8 0.01
198 108 0.10
199 543 0.53
200 114 0.11
201 258 0.25
202 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (200 bp):
AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
ATAGGTAAATTTCAAATGTAACCGGTAGAAATATACCGTTTAATTAGAAAATAGGTCTACATAAT
GTATCGACACTTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCA
CGCAT
Found at i:77718 original size:597 final size:600
Alignment explanation
Indices: 76581--77944 Score: 1985
Period size: 597 Copynumber: 2.3 Consensus size: 600
76571 TAGGTAAACA
* * *
76581 AAAGTGTCGATAAATTTATTAAAAGTATCGATCCCAAAAACATCGGAACAAATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTACAATGTA
* * * ** * * *
76646 ATAGGTAAATTTCCAATATAATTGGTAG-GTTAATACCAGTTTAATTAGAAAACATGTCA-ACAT
66 ATAGGTAAATTTCAAATGTAACTGGTAGAAAT-ATACC-GGTTAATTAGAAAATAGGT-ATACAT
*
76709 AATGTATCGACACTTTTTAAATTTGTGTCGATATTTTTTGTCCAGAATGAATGCTCAACCGAGGT
128 AATGTATCGACACTTTTTAAATTTGTGTCGATATTTTTTGTCCAGAATGAATGCTCAAACGAGGT
* * *
76774 TCACGCATAAAGTGTCGATACATTTATTAAAAGTATAGATCCCAAAAATATCAAAACAAATAATT
193 GCACACATAAAGTGTCGATACATTTATTAAAAGTATAGATCCCAAAAACATCAAAACAAATAATT
* *
76839 ATAATGCAATAAGTAAATTTTTAATGAAACCAGTAGATATATATCAGTTTAATTAGAAAACATGT
258 ATAATGCAATAAGTAAATTTCTAATGAAACCAGTAGATATATATCAGTTTAATTAGAAAACAGGT
* * *
76904 AAACATAATGTATTGACACTTTTTAAATTTATGTCGATACTTTTGGTCCAGAATGAATGCTCAAC
323 AAACATAATGTATCGACACTTTTGAAATTTATGTCGATACTTTTGGTCCAGAATGAATGCCCAAC
*
76969 CGAGGTGCACGCATAAAGTGTCAATACATTTATTAAAAGTAGCCATCCCAAAAACATCGAAACAG
388 CGAGGTGCACGCATAAAATGTCAATACATTTATTAAAAGTAGCCATCCCAAAAACATCGAAACAG
77034 ATAATTACAATATAATAGGTAAATTTCAAATGTAACCGGTAGAAATATACCGATTAATTAGAAAA
453 ATAATTACAATATAATAGGTAAATTTCAAATGTAACCGGTAGAAATATACCGATTAATTAGAAAA
** * *
77099 TAGGTCTACATAATGTATCGACACTTTTGCAATTTGTGTCGATACTTTTTGTCCAGAATGAATGT
518 TAGGTCTACATAATGTATCGACACTTTTAAAATTTGTGTCGATACGTTTTGTCCAGAATGAATGC
77164 CAAACGGGGTGCACACAT
583 CAAACGGGGTGCACACAT
*
77182 AAAGTGTCGATACATTTATTAAAAGTAGCGATCCCAAAAACATCGAAACAAATAATTACAATGTA
1 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTACAATGTA
* *
77247 ATAGGTAAATTTCAAATGTAACCGATAGAAATATACCGGTTAATTAGAAAATAGGTATACATAAT
66 ATAGGTAAATTTCAAATGTAACTGGTAGAAATATACCGGTTAATTAGAAAATAGGTATACATAAT
** * *
77312 GTATCGACACTTTTGCAATTTGTGTCGATACTTTTTGTCCAGAATGAATGC-CAAACGGGGTGCA
131 GTATCGACACTTTTTAAATTTGTGTCGATATTTTTTGTCCAGAATGAATGCTCAAACGAGGTGCA
* * * *
77376 CACATTAAGTGTCGATACATTTATTAAAAGTTTCA-ATCCCAAAAACATCGAAACATATAATTAT
196 CACATAAAGTGTCGATACATTTATTAAAAGTAT-AGATCCCAAAAACATCAAAACAAATAATTAT
* * * *
77440 AATGTAATAGGTAAATTTCTAATGTAACC-GATAGATATATATCGGTTTAATTAGAAAA-AGGTA
260 AATGCAATAAGTAAATTTCTAATGAAACCAG-TAGATATATATCAGTTTAATTAGAAAACAGGTA
*
77503 AACATAATGTATCGACACTTTTGAAA-TTGTGTCGATACTTGTT-GTCCAGAATGAATGCCCAAC
324 AACATAATGTATCGACACTTTTGAAATTTATGTCGATACTT-TTGGTCCAGAATGAATGCCCAAC
* * * *
77566 CGAGGTGCACGCATAAAATGTCGATACATTTATTAAAAGTAGCGATCCCAAAAACATTGAAATAG
388 CGAGGTGCACGCATAAAATGTCAATACATTTATTAAAAGTAGCCATCCCAAAAACATCGAAACAG
* * * *
77631 ATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAA
453 ATAATTACAATATAATAGGTAAATTTCAAATGTAACCGGTAGAAATATACCGATTAATTAGAAAA
* *
77696 TTGGTCTACATAATGTATCGACACTTTTAAAATTTGTGTCGATACGTTTTGTCCATAATGAATGC
518 TAGGTCTACATAATGTATCGACACTTTTAAAATTTGTGTCGATACGTTTTGTCCAGAATGAATGC
* *
77761 CCAACGGGGTGCACGCAT
583 CAAACGGGGTGCACACAT
**
77779 AAAGTGTCGATACA-TT-TTAAAATGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGT
1 AAAGTGTCGATACATTTATTAAAA-GTATCGATCCCAAAAACATCGAAACAAATAATTACAATGT
* * * * * * * * *
77842 AATAAGTAAA-TTAACAATGTAACTGGTATAAATTTATCGGTTTTATGAGAAAATAGGTCTGCAT
65 AATAGGTAAATTTCA-AATGTAACTGGTAGAAATATACCGG-TTAATTAGAAAATAGGTATACAT
*
77906 AATGTATCGACACTTTTTAAATTTGTATCGATATTTTTT
128 AATGTATCGACACTTTTTAAATTTGTGTCGATATTTTTT
77945 TAATTACGTG
Statistics
Matches: 684, Mismatches: 71, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
595 9 0.01
596 68 0.10
597 296 0.43
598 31 0.05
599 118 0.17
600 72 0.11
601 89 0.13
602 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (600 bp):
AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTACAATGTA
ATAGGTAAATTTCAAATGTAACTGGTAGAAATATACCGGTTAATTAGAAAATAGGTATACATAAT
GTATCGACACTTTTTAAATTTGTGTCGATATTTTTTGTCCAGAATGAATGCTCAAACGAGGTGCA
CACATAAAGTGTCGATACATTTATTAAAAGTATAGATCCCAAAAACATCAAAACAAATAATTATA
ATGCAATAAGTAAATTTCTAATGAAACCAGTAGATATATATCAGTTTAATTAGAAAACAGGTAAA
CATAATGTATCGACACTTTTGAAATTTATGTCGATACTTTTGGTCCAGAATGAATGCCCAACCGA
GGTGCACGCATAAAATGTCAATACATTTATTAAAAGTAGCCATCCCAAAAACATCGAAACAGATA
ATTACAATATAATAGGTAAATTTCAAATGTAACCGGTAGAAATATACCGATTAATTAGAAAATAG
GTCTACATAATGTATCGACACTTTTAAAATTTGTGTCGATACGTTTTGTCCAGAATGAATGCCAA
ACGGGGTGCACACAT
Found at i:79522 original size:19 final size:19
Alignment explanation
Indices: 79498--79545 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
79488 ATGTAGGGGA
*
79498 AATTTTGTATATGATTCAT
1 AATTTTGTATACGATTCAT
*
79517 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
79536 AATTTTGTAT
1 AATTTTGTAT
79546 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.54
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Done.