Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold510
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: 507550
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 4
Found at i:168511 original size:13 final size:13
Alignment explanation
Indices: 168493--168517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
168483 CATTTTATGG
168493 TGTATCGATACAA
1 TGTATCGATACAA
168506 TGTATCGATACA
1 TGTATCGATACA
168518 TACTGTGTGT
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:168533 original size:32 final size:33
Alignment explanation
Indices: 168470--168537 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
168460 CGTTACAAGC
**
168470 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
168503 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
168535 CAA
1 CAA
168538 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:168626 original size:13 final size:13
Alignment explanation
Indices: 168608--168632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
168598 ACATTTAGTC
168608 ATGTATCGATACA
1 ATGTATCGATACA
168621 ATGTATCGATAC
1 ATGTATCGATAC
168633 TGTGCAACAT
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):
ATGTATCGATACA
Found at i:169240 original size:15 final size:13
Alignment explanation
Indices: 169220--169275 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 13
169210 CAACAAGCAA
169220 AAAAAAAATGACATG
1 AAAAAAAAT-A-ATG
*
169235 AAAAAAAATTAAATT
1 AAAAAAAA-T-AATG
169250 AAAAAAAATAATG
1 AAAAAAAATAATG
*
169263 GAAAAAAATAATG
1 AAAAAAAATAATG
169276 GCATTCGGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 15 0.42
14 1 0.03
15 18 0.50
16 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (13 bp):
AAAAAAAATAATG
Found at i:169267 original size:13 final size:13
Alignment explanation
Indices: 169251--169276 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
169241 AATTAAATTA
169251 AAAAAAATAATGG
1 AAAAAAATAATGG
169264 AAAAAAATAATGG
1 AAAAAAATAATGG
169277 CATTCGGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAAAATAATGG
Found at i:170308 original size:170 final size:171
Alignment explanation
Indices: 169948--170313 Score: 427
Period size: 171 Copynumber: 2.2 Consensus size: 171
169938 TTTAAGTGGT
* **
169948 TAAGGACTAAAATACAAATATCCAAAGGTTAGGGACCTGTATGCAAAACCGATTTTTCTTTAGAA
1 TAAGGACCAAAATGTAAATATCCAAAGGTTAGGGACCTGTATGCAAAACCGATTTTTCTTTAGAA
* * *
170013 ATGTTGTACATGGCCGAACCCAAAATGTTTCTTTGCTGTATTTTTGCTACTGCTAGTAGGCTAAT
66 ATGTTGTACATGGCCGAACCCAAAATGTTTCTTGGCTGTAATTTTGCTACTGCTAGTAAGCTAAT
*
170078 TTCATGCTTTAAATGATGTGTTCCTATGTTATTTTGATGTA
131 TTCATGCTTTAAATGATGTGTTCCTATGTTATTTTGAAGTA
* * * **
170119 TAGGGACCAAAATGTAAATATCCAAA-GTATAGGGACTTGTATGCAGAATTGATTTTTCTTTAGA
1 TAAGGACCAAAATGTAAATATCCAAAGGT-TAGGGACCTGTATGCAAAACCGATTTTTCTTTAGA
*** * * *** ** ** * * *
170183 AATGTTGTGTTTGGTCGGATTTAGCATGTTTCTTGGCTG-AATTTTGCTGTTGTTATTAAGCTGA
65 AATGTTGTACATGGCCGAACCCAAAATGTTTCTTGGCTGTAATTTTGCTACTGCTAGTAAGCTAA
170247 TTTCATGCTTTAAATGATGTGTTCCCT-TGTTATTTTGAAGTA
130 TTTCATGCTTTAAATGATGTGTT-CCTATGTTATTTTGAAGTA
170289 TAAAGG-CCAAAATGTAAATA-CCAAA
1 T-AAGGACCAAAATGTAAATATCCAAA
170314 AAGTTTAGGG
Statistics
Matches: 164, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
169 5 0.03
170 72 0.44
171 87 0.53
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (171 bp):
TAAGGACCAAAATGTAAATATCCAAAGGTTAGGGACCTGTATGCAAAACCGATTTTTCTTTAGAA
ATGTTGTACATGGCCGAACCCAAAATGTTTCTTGGCTGTAATTTTGCTACTGCTAGTAAGCTAAT
TTCATGCTTTAAATGATGTGTTCCTATGTTATTTTGAAGTA
Found at i:170418 original size:14 final size:15
Alignment explanation
Indices: 170390--170418 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
170380 TTTTGTGAAA
170390 TGTATGTAGAATATT
1 TGTATGTAGAATATT
170405 TGTATGTA-AATATT
1 TGTATGTAGAATATT
170419 AATATCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (15 bp):
TGTATGTAGAATATT
Found at i:170637 original size:12 final size:12
Alignment explanation
Indices: 170620--170644 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
170610 CTTTCAGGCT
170620 TCCATTAGGGTA
1 TCCATTAGGGTA
170632 TCCATTAGGGTA
1 TCCATTAGGGTA
170644 T
1 T
170645 GAAATGGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TCCATTAGGGTA
Found at i:171407 original size:155 final size:155
Alignment explanation
Indices: 171125--171418 Score: 385
Period size: 155 Copynumber: 1.9 Consensus size: 155
171115 GCATTATCCC
* * * * * *
171125 AAGTCTTTTAGGGGTATCGGGTACTTTTACGTCGAAAGAATCCCCTAAGGGTATTTTTGTAATTT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAAGAATCCCCCAACGGCATTTTGGTAATTT
* * * * * * *
171190 TTTAGAATCGATTCCTAGGTTGTCATCGAGTCCGCTTTTATGCTGAAGGTAGATATTTAGGATAG
66 CTTAGAACCGAATCCTAGGTTGTCACCGAGTCCGCTTTCATGCCGAAAGTAGATATTTAGGATAG
171255 GTTCATCTCATCTATTATCCTCTTT
131 GTTCATCTCATCTATTATCCTCTTT
* *
171280 AAGTCCTTTAGGGGTA-CTAGGTACTTTTATGTC-AAAGGTATCCCCCAACGGCATTTTGGTAAT
1 AAGTCCTTTAGGGGTATC-AGGTACTTTTACGTCGAAA-GAATCCCCCAACGGCATTTTGGTAAT
* * *
171343 TTCTTATAACCGAATCTTAGGTTGTCACCGAGTCCGCTTTCATGCCGAAAGTAGGTATTTAGGAT
64 TTCTTAGAACCGAATCCTAGGTTGTCACCGAGTCCGCTTTCATGCCGAAAGTAGATATTTAGGAT
*
171408 ATGTTCATCTC
129 AGGTTCATCTC
171419 TTTTAAAGTC
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
154 4 0.03
155 114 0.97
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (155 bp):
AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAAGAATCCCCCAACGGCATTTTGGTAATTT
CTTAGAACCGAATCCTAGGTTGTCACCGAGTCCGCTTTCATGCCGAAAGTAGATATTTAGGATAG
GTTCATCTCATCTATTATCCTCTTT
Found at i:171436 original size:155 final size:155
Alignment explanation
Indices: 171125--171470 Score: 383
Period size: 155 Copynumber: 2.2 Consensus size: 155
171115 GCATTATCCC
* * * * * *
171125 AAGTCTTTTAGGGGTATCGGGTACTTTTACGTCGAAAGAATCCCCTAAGGGTATTTTTGTAATTT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAAGAATCCCCCAACGGCATTTTGGTAATTT
* * * * * * *
171190 TTTAGAATCGATTCCTAGGTTGTCATCGAGTCCGCTTTTATGCTGAAGGTAGATATTTAGGATAG
66 CTTAGAACCGAATCCTAGGTTGTCACCGAGTCCGCTTTCATGCCGAAAGTAGATATTTAGGATAG
*
171255 GTTCATCTCATCTATTATCCTCTTT
131 GTTCATCTCATCTATAATCCTCTTT
* *
171280 AAGTCCTTTAGGGGTA-CTAGGTACTTTTATGTC-AAAGGTATCCCCCAACGGCATTTTGGTAAT
1 AAGTCCTTTAGGGGTATC-AGGTACTTTTACGTCGAAA-GAATCCCCCAACGGCATTTTGGTAAT
* * *
171343 TTCTTATAACCGAATCTTAGGTTGTCACCGAGTCCGCTTTCATGCCGAAAGTAGGTATTTAGGAT
64 TTCTTAGAACCGAATCCTAGGTTGTCACCGAGTCCGCTTTCATGCCGAAAGTAGATATTTAGGAT
* * * *
171408 ATGTTCATCTCTTTTA-AAGTCCTTTTT
129 AGGTTCATCTCATCTATAA-TCCTCTTT
* * ** * *
171435 AAGTCCTGTAGGGATATCTTGTGCTTTTACGACGAA
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAA
171471 GGTATTTTTT
Statistics
Matches: 156, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
154 5 0.03
155 148 0.95
156 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (155 bp):
AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAAGAATCCCCCAACGGCATTTTGGTAATTT
CTTAGAACCGAATCCTAGGTTGTCACCGAGTCCGCTTTCATGCCGAAAGTAGATATTTAGGATAG
GTTCATCTCATCTATAATCCTCTTT
Found at i:171795 original size:5 final size:6
Alignment explanation
Indices: 171779--171808 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
171769 GAGTTTTAAG
171779 ATTTTT ATTTTT ATTTTT A-TTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
171809 ATTAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:171801 original size:11 final size:12
Alignment explanation
Indices: 171779--171808 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
171769 GAGTTTTAAG
171779 ATTTTTATTTTT
1 ATTTTTATTTTT
171791 ATTTTTA-TTTT
1 ATTTTTATTTTT
171802 ATTTTTA
1 ATTTTTA
171809 ATTAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:173136 original size:7 final size:7
Alignment explanation
Indices: 173124--173148 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
173114 GTGTTTGAAA
173124 AAAAAAT
1 AAAAAAT
173131 AAAAAAT
1 AAAAAAT
173138 AAAAAAT
1 AAAAAAT
173145 AAAA
1 AAAA
173149 TTTCCAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:173179 original size:21 final size:21
Alignment explanation
Indices: 173155--173231 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
173145 AAAATTTCCA
173155 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
173176 AATGTATCGATACATTTGT-G
1 AATGTATCGATACATTTGTAG
* * *
173196 AAATGTATCGATGCA-TTCTACA
1 -AATGTATCGATACATTTGTA-G
173218 AATGTATCGATACA
1 AATGTATCGATACA
173232 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.08
21 45 0.92
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:173291 original size:19 final size:19
Alignment explanation
Indices: 173267--173334 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
173257 AATTCAACGA
173267 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
173286 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
173301 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
173318 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
173335 TTAGCTACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:173305 original size:32 final size:32
Alignment explanation
Indices: 173269--173331 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
173259 TTCAACGATT
*
173269 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
173301 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
173332 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:173306 original size:13 final size:13
Alignment explanation
Indices: 173288--173312 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
173278 ACATAAGTTT
173288 TGTATCGATACAA
1 TGTATCGATACAA
173301 TGTATCGATACA
1 TGTATCGATACA
173313 TAAGTATTGT
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:173392 original size:13 final size:13
Alignment explanation
Indices: 173374--173399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
173364 CATTTTTTTG
173374 TGTATCGATACAT
1 TGTATCGATACAT
173387 TGTATCGATACAT
1 TGTATCGATACAT
173400 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:175904 original size:27 final size:26
Alignment explanation
Indices: 175874--175946 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
175864 CTTCACAATT
175874 GGGGATACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATATC--C
* *
175901 GGGGATACTCCAACCTCGTTATTTCC
1 GGGGATACTCCAACCCCGTTATATCC
175927 GAAGGGATACTCCAACCCCG
1 G--GGGATACTCCAACCCCG
175947 GTTTTATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 2 0.05
27 20 0.50
28 18 0.45
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.22
Consensus pattern (26 bp):
GGGGATACTCCAACCCCGTTATATCC
Found at i:176086 original size:52 final size:51
Alignment explanation
Indices: 175930--176099 Score: 159
Period size: 52 Copynumber: 3.3 Consensus size: 51
175920 TATTTCCGAA
* ** * *
175930 GGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTTTTCCACAATCG
1 GGGATACTCCAACTCCGGTTTTATTTCTAAAACACCAA-ATTTT-CACAATCG
*
175983 GGGATACTCCAA-TCCCGGTTTTATTT-TCAAAACGCC-AATTTTC-CTTTAATCG
1 GGGATACTCCAACT-CCGGTTTTATTTCT-AAAACACCAAATTTTCAC---AATCG
* *
176035 GGGATACTCCAACTCCGATTTTATTTCTAAAAATACCAAATTTTCACAATCG
1 GGGATACTCCAACTCCGGTTTTATTTCT-AAAACACCAAATTTTCACAATCG
*
176087 AGGATACTCCAAC
1 GGGATACTCCAAC
176100 CTCGTTATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 4 0.04
52 47 0.48
53 36 0.37
54 7 0.07
55 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACTCCGGTTTTATTTCTAAAACACCAAATTTTCACAATCG
Found at i:176119 original size:28 final size:28
Alignment explanation
Indices: 176083--176159 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
176073 AATTTTCACA
* * *
176083 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
176111 ATCGGGGATCCTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
176139 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
176160 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:176127 original size:213 final size:213
Alignment explanation
Indices: 175760--176164 Score: 582
Period size: 213 Copynumber: 1.9 Consensus size: 213
175750 TTCTCAATTC
* *
175760 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGAA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGAA
* * * *
175825 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATTGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTCTTCACAATCGAGGATACTCCAACCC
* * *
175890 CGTTAATCATCGGGGATACTCCAACCTCGTTATTTCCGAAGGGATACTCCAACCCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCGATTTTATC
175955 GCTAAAACACTAATTTTT
196 GCTAAAACACTAATTTTT
* * *
175973 TCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* * *
176037 GATACTCCAACTCCGATTTTATTT-CTAAAAATACCAAATT-TTCACAATCGAGGATACTCCAAC
64 AATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTCTTCACAATCGAGGATACTCCAAC
* * * * *
176100 CTCGTTATTTCATCGGGGATCCTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCCGATTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCGATTTT
176165 TTTTTCTTCT
Statistics
Matches: 169, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
212 28 0.17
213 109 0.64
214 32 0.19
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (213 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGAA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCGATTTTATC
GCTAAAACACTAATTTTT
Found at i:188656 original size:15 final size:14
Alignment explanation
Indices: 188634--188669 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
188624 CCTTCTCTTC
188634 AAAAAAAAAAGCAA
1 AAAAAAAAAAGCAA
*
188648 AAGAAAAAAAAGGAA
1 AA-AAAAAAAAGCAA
188663 AAAAAAA
1 AAAAAAA
188670 CAAAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGCAA
Found at i:188663 original size:10 final size:9
Alignment explanation
Indices: 188646--188706 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
188636 AAAAAAAAGC
188646 AAAAGAAAA
1 AAAAGAAAA
188655 AAAAGGAAAA
1 AAAA-GAAAA
188665 AAAA-ACAAA
1 AAAAGA-AAA
*
188674 AAAACAAAA
1 AAAAGAAAA
*
188683 TAAAGAAAA
1 AAAAGAAAA
*
188692 AGAGAGAAAA
1 A-AAAGAAAA
188702 GAAAA
1 -AAAA
188707 AAACCTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 1 0.02
9 21 0.50
10 19 0.45
11 1 0.02
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.02
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:189881 original size:115 final size:115
Alignment explanation
Indices: 189671--190218 Score: 655
Period size: 115 Copynumber: 4.7 Consensus size: 115
189661 TCCTTCCGCT
*
189671 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1 TTCCAGTCCTCAAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCA
*
189736 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
61 GTCCTCAAAGAGCAGGAC-CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
189792 TT-CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCTACATAAGTTGGTGGCACTTCCCAGTCCT
1 TTCCAGTCCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
**
189856 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATT
66 CAAAGAGCAGGAC-CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
189907 TTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC
1 TTCCAGTCCTCAAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCC
*
189972 -GTCCCCAAAGAGCAGGA--C--C-CCTTTTAAAGCCCACACAAGTTGGTGGCA-C
60 AGTCCTCAAAGAGCAGGACCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
190021 TTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACATAAGTTGGTGGCATTTTC
1 TT-CCAGTCCTCAAAGAGCAGGAC-CC--CT--TTT-AAAGCCCACACAAGTTGGTGGCACTTTC
* * *
190086 CAGTCCTCAAAGAGCGGGACCCTT-TTCTTTTAAAGCCCATACAAGTTGGTGGCACC
59 CAGTCCTCAAAGAGCAGGACCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * **
190142 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAGTTTTTAGTCCT
1 TTCCAGTCCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
190207 CAAAGAGCAGGA
66 CAAAGAGCAGGA
190219 TACACTTTAT
Statistics
Matches: 379, Mismatches: 30, Indels: 43
0.84 0.07 0.10
Matches are distributed among these distances:
113 4 0.01
114 44 0.12
115 149 0.39
116 57 0.15
117 3 0.01
118 2 0.01
119 2 0.01
120 67 0.18
121 46 0.12
122 5 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (115 bp):
TTCCAGTCCTCAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
CAAAGAGCAGGACCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:189983 original size:176 final size:176
Alignment explanation
Indices: 189673--190218 Score: 891
Period size: 176 Copynumber: 3.1 Consensus size: 176
189663 CTTCCGCTTT
* * *
189673 CCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAG
1 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
*
189737 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCT
66 TCCTCAAAGAGCGGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* *
189801 CAAAGAGCAGGACACCTTTTAAAGCCTACATAAGTTGGTGGCACTTC
130 CAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
189848 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* * *
189913 TCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCCGTCCCC
66 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
*
189978 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
131 AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* *
190024 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAG
1 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
*
190089 TCCTCAAAGAGCGGGAC-CCTTTTCTTTTAAAGCCCATACAAGTTGGTGGCACCTTTCAGTCCTC
66 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* * * *
190153 AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAGTTT
131 AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
**
190199 TTAGTCCTCAAAGAGCAGGA
1 CCAGTCCTCAAAGAGCAGGA
190219 TACACTTTAT
Statistics
Matches: 347, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
175 158 0.46
176 189 0.54
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (176 bp):
CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
Found at i:190771 original size:7 final size:7
Alignment explanation
Indices: 190759--190783 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
190749 GTGTTTGAAA
190759 AAAAAAT
1 AAAAAAT
190766 AAAAAAT
1 AAAAAAT
190773 AAAAAAT
1 AAAAAAT
190780 AAAA
1 AAAA
190784 TTTCCAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:190837 original size:21 final size:22
Alignment explanation
Indices: 190788--190846 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
190778 ATAAAATTTC
*
190788 CAAATGTATCGATACATTTGTA
1 CAAATGTATCGATACATTTCTA
*
190810 GAAATGTATCGATACA-TTCTA
1 CAAATGTATCGATACATTTCTA
190831 CAAATGTATCGATACA
1 CAAATGTATCGATACA
190847 GGGTCCCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (22 bp):
CAAATGTATCGATACATTTCTA
Found at i:190906 original size:19 final size:19
Alignment explanation
Indices: 190882--190949 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
190872 AATTCAACGA
190882 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
190901 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
190916 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
190933 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
190950 TTAGCTACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:190920 original size:32 final size:32
Alignment explanation
Indices: 190884--190946 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
190874 TTCAACGATT
*
190884 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
190916 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
190947 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:190921 original size:13 final size:13
Alignment explanation
Indices: 190903--190927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190893 ACATAAGTTT
190903 TGTATCGATACAA
1 TGTATCGATACAA
190916 TGTATCGATACA
1 TGTATCGATACA
190928 TAAGTATTGT
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:191006 original size:13 final size:13
Alignment explanation
Indices: 190988--191013 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
190978 ACATTTTTTG
190988 TGTATCGATACAT
1 TGTATCGATACAT
191001 TGTATCGATACAT
1 TGTATCGATACAT
191014 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:193264 original size:51 final size:53
Alignment explanation
Indices: 193202--193543 Score: 208
Period size: 52 Copynumber: 6.5 Consensus size: 53
193192 AGTTTCTCAA
* * * *
193202 TTCTCCATAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
193253 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ATAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * * *** * * *
193307 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAC
1 TTCTTCATAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAAT
** ** * * * *
193360 CCCGTT-ATTTTTGAGGGGATACTCCAACCCCGATTTTA--TCGCTAAAACACTAAT
1 TTC-TTCA-TAAT-CGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * * *
193414 TT-TTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAA-T
*
193467 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
193519 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCATAATCGGGGATACTCCAAC
193544 CTCGTTATTT
Statistics
Matches: 219, Mismatches: 48, Indels: 47
0.70 0.15 0.15
Matches are distributed among these distances:
50 4 0.02
51 34 0.16
52 84 0.38
53 34 0.16
54 37 0.17
55 23 0.11
57 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:193346 original size:27 final size:27
Alignment explanation
Indices: 193316--193391 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
193306 TTTCTTCACA
193316 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
193343 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
193370 TTGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
193392 ATTTTATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 26 0.59
28 18 0.41
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:193527 original size:104 final size:102
Alignment explanation
Indices: 193210--193544 Score: 313
Period size: 104 Copynumber: 3.2 Consensus size: 102
193200 AATTCTCCAT
* * * *
193210 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAAC-CCGGTTTTATTTTCAAAACACCAATTTTCTTTAATCGGGGATACTC
*
193275 TAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAC
65 CAACTCCGATTTTATTTCC-AAAAACACCAATTT-TTCAC
* * ** * * * *
193315 AATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAACCCCGTTATT-TTTGA--GG
1 AATCGGGGATACTCCAACCCGGTTTTATTTTC---AAAACACCAA-----TT-TTCTTTAATCGG
* * *
193376 GGATACTCCAACCCCGATTTTA--TCGCTAAAACACTAATTTTTCCAC
57 GGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT-CAC
*
193422 AATCGGGGATACTCCAATCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTT-CTTTAATCGGGGATACT
*
193487 CCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAC
64 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
*
193526 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
193545 TCGTTATTTC
Statistics
Matches: 182, Mismatches: 29, Indels: 40
0.73 0.12 0.16
Matches are distributed among these distances:
100 2 0.01
101 2 0.01
102 4 0.02
103 8 0.04
104 44 0.24
105 31 0.17
106 17 0.09
107 34 0.19
108 5 0.03
109 28 0.15
111 5 0.03
112 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (102 bp):
AATCGGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCTTTAATCGGGGATACTCC
AACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
Found at i:193563 original size:28 final size:28
Alignment explanation
Indices: 193527--193603 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
193517 ATTTTTCACA
* * *
193527 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
193555 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
193583 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
193604 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:193577 original size:212 final size:212
Alignment explanation
Indices: 193205--193608 Score: 625
Period size: 212 Copynumber: 1.9 Consensus size: 212
193195 TTCTCAATTC
* * *
193205 TCCATAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
193270 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* **
193335 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGATTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATC
193400 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
193417 TCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
193481 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
193544 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCCGATTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTT
193609 TTTTTCTTTT
Statistics
Matches: 174, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 29 0.17
212 110 0.63
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATC
GCTAAAACACTAATTTT
Found at i:195515 original size:55 final size:55
Alignment explanation
Indices: 195374--196397 Score: 949
Period size: 55 Copynumber: 17.9 Consensus size: 55
195364 AAAGGCAAAA
* * * *
195374 TCCTGCTCTTTGAGGACGGAAGGGTGCCACCAACTGGTG-GGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * *
195428 TCCTGCGCTTT-AAGACTGGAAA-ATGCCACCAAC-TGTGGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGT-GTGGGCTTTAAAAGGTG
* * * **
195482 TCCTGCTCTTTGGGGGCTGAAAGGTGCCACCAACATGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-----GTG
* *
195543 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTG
*
195602 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-----GTG
*
195661 T-CTCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCT-GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * * *
195715 TCCTGCTCTCTAAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* *
195770 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* **
195825 TCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-----GTG
* *
195886 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAG-G
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG----GTG
* * *
195943 CATCCCGCTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 --TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTG
*
196004 T-CTCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCT-GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * * *
196058 TCCTGCTCTCTAAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * *
196113 TCCTGCTCTTTAAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* **
196168 TCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-----GTG
* *
196229 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAG-G
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG----GTG
* * *
196286 CATCCCGCTTTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 --TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTG
196347 T-CTCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 TCCT-GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
196398 AAAAGGCATC
Statistics
Matches: 836, Mismatches: 70, Indels: 128
0.81 0.07 0.12
Matches are distributed among these distances:
52 2 0.00
53 15 0.02
54 94 0.11
55 272 0.33
56 20 0.02
58 13 0.02
59 269 0.32
60 77 0.09
61 58 0.07
64 16 0.02
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
Found at i:195619 original size:59 final size:59
Alignment explanation
Indices: 195374--196430 Score: 1144
Period size: 59 Copynumber: 18.4 Consensus size: 59
195364 AAAGGCAAAA
* * *
195374 TCCTGCTCTTTGAGGACGGAAGGGTGCCACCAACTGGTG-GGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * ** *
195428 TCCTGCGCTTT-AAGACTGGAAAATGCCACCAAC-TGTGGTGGGCTTT-----AAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGT-GTGGGCTTTAAAAGAAAAGGCG
* * * * *
195482 TCCTGCTCTTTGGGGGCTGAAAGGTGCCACCAACATGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
*
195543 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
195602 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
195661 T-CTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCT-GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * ** *
195715 TCCTGCTCTCTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** *
195770 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
195825 TCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * *
195886 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
195945 TCCCGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
196004 T-CTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCT-GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * ** *
196058 TCCTGCTCTCTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* ** *
196113 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
196168 TCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * *
196229 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
196288 TCCCGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
196347 T-CTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
1 TCCT-GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
196406 TCCCGCTCTTTGAGGACTGAAGGTG
1 TCCTGCTCTTTGAGGACTGAAGGTG
196431 GAAGGATAAG
Statistics
Matches: 882, Mismatches: 80, Indels: 77
0.85 0.08 0.07
Matches are distributed among these distances:
52 2 0.00
53 17 0.02
54 72 0.08
55 280 0.32
56 3 0.00
57 6 0.01
58 3 0.00
59 355 0.40
60 78 0.09
61 66 0.07
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:195835 original size:343 final size:342
Alignment explanation
Indices: 195398--196394 Score: 1811
Period size: 343 Copynumber: 2.9 Consensus size: 342
195388 GACGGAAGGG
* * *
195398 TGCCACCAACTGGTG-GGGCTTT-AAGAGGTGTCCTGCGCTTTAAGACTGGAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTAGGACTGGAAAATGCCACCAAC
* * * * *
195461 -TGTGGTGGGCTTTAAAAGGTGTCCTGCTCTTTGGGGGCTGAAAGGTGCCACCAACATGTGTGGG
65 TTGT-GTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGG
*
195525 CTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTA
129 CTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTA
* * *
195590 AAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAA
194 AAAGAAAAGGCATCCCGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAA
* *
195655 AATGTGTCTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTG
259 AAGGCGTCTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTG
195720 CTCTCTAAGGACTGGAAAA
324 CTCTCTAAGGACTGGAAAA
195739 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTT-AGGACTGGAAAATGCCACCAAC
195804 TTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
65 TTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
195869 TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAA
130 TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAA
195934 AAGAAAAGGCATCCCGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAA
195 AAGAAAAGGCATCCCGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAA
195999 AGGCGTCTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGC
260 AGGCGTCTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGC
196064 TCTCTAAGGACTGGAAAA
325 TCTCTAAGGACTGGAAAA
196082 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTAAGGACTGGAAAATGCCACCAAC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTT-AGGACTGGAAAATGCCACCAAC
196147 TTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
65 TTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
196212 TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAA
130 TTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAA
196277 AAGAAAAGGCATCCCGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAA
195 AAGAAAAGGCATCCCGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAA
196342 AGGCGTCTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAA
260 AGGCGTCTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAA
196395 AAGAAAAGGC
Statistics
Matches: 637, Mismatches: 15, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
341 14 0.02
342 22 0.03
343 598 0.94
344 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (342 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTAGGACTGGAAAATGCCACCAACT
TGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCT
TTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAAA
AGAAAAGGCATCCCGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
GGCGTCTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCT
CTCTAAGGACTGGAAAA
Found at i:197427 original size:28 final size:25
Alignment explanation
Indices: 197389--197449 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 25
197379 CTTAAGCAGA
*
197389 TTTTTTTTGTTTGTTTTGTTTGTTTTGT
1 TTTTTTTTG-TTGTTTT-TTT-TTGTGT
197417 TTTTTTTTGTTGTTTTTTTTTGTGT
1 TTTTTTTTGTTGTTTTTTTTTGTGT
197442 TTTTTTTT
1 TTTTTTTT
197450 AAAAAGAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 13 0.41
26 3 0.09
27 7 0.22
28 9 0.28
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (25 bp):
TTTTTTTTGTTGTTTTTTTTTGTGT
Found at i:197433 original size:9 final size:8
Alignment explanation
Indices: 197390--197447 Score: 57
Period size: 9 Copynumber: 6.9 Consensus size: 8
197380 TTAAGCAGAT
197390 TTTTTTTG
1 TTTTTTTG
197398 TTTGTTTTG
1 TTT-TTTTG
197407 TTTGTTTTG
1 TTT-TTTTG
197416 TTTTTTT-
1 TTTTTTTG
197423 TTGTTGTTT-
1 TT-TT-TTTG
197432 TTTTTTGTG
1 TTTTTT-TG
197441 TTTTTTT
1 TTTTTTT
197448 TTAAAAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
7 4 0.09
8 13 0.29
9 28 0.62
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (8 bp):
TTTTTTTG
Found at i:197448 original size:13 final size:12
Alignment explanation
Indices: 197389--197449 Score: 77
Period size: 13 Copynumber: 4.8 Consensus size: 12
197379 CTTAAGCAGA
197389 TTTTTTTTGTTTG
1 TTTTTTTT-TTTG
197402 TTTTGTTTGTTTTG
1 TTTT-TTT-TTTTG
197416 TTTTTTTTTGTTG
1 TTTTTTTTT-TTG
*
197429 TTTTTTTTTGTG
1 TTTTTTTTTTTG
197441 TTTTTTTTT
1 TTTTTTTTT
197450 AAAAAGAATG
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
12 13 0.30
13 19 0.43
14 11 0.25
15 1 0.02
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:210050 original size:28 final size:28
Alignment explanation
Indices: 210010--210081 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
210000 GGAATAAAGC
**
210010 CGGGGTTGGAGTATCCCCTCGGA-AGTAA
1 CGGGGTTGGAGTATCCCCGAGGAGA-TAA
*
210038 CGGGGTTGGAGTATCCCCGATGAGATAA
1 CGGGGTTGGAGTATCCCCGAGGAGATAA
*
210066 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
210082 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAGATAA
Found at i:210221 original size:52 final size:51
Alignment explanation
Indices: 210066--210290 Score: 197
Period size: 52 Copynumber: 4.4 Consensus size: 51
210056 GATGAGATAA
* * * * * *
210066 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTAGAAATAAAAC
* *
210118 CG-GAGTTGGAGTATCCCCGATTAAAGGAAAAATTTGTGTTTT-GAAAATAAAAC
1 CGAG-GTTGGAGTATCCCCGATT--ATGAAAAATTAGTGTTTTAG-AAATAAAAC
* *
210171 CGAGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAAC
1 CGAGGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTAGAAATAAAAC
* * * * * **
210223 CGGGGTTGTAGTA-CCCTCGATTATG-AAAATCAATATTTTAGAAATAAAGT
1 CGAGGTTGGAGTATCCC-CGATTATGAAAAATTAGTGTTTTAGAAATAAAAC
*
210273 CGGGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
210291 TCGAAAATAA
Statistics
Matches: 144, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
50 32 0.22
51 8 0.06
52 60 0.42
53 33 0.23
54 11 0.08
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAC
Found at i:210315 original size:263 final size:262
Alignment explanation
Indices: 209959--210445 Score: 739
Period size: 263 Copynumber: 1.9 Consensus size: 262
209949 TCGAAAATAA
* *
209959 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
* * * *
210024 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAGATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGA-ATAACGAGGTTGGAGTATCCCCGATTG
*
210089 TGAAAAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAAATTT
130 TGAAAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-G-AAAATTA
*
210153 GTGTTTTGAAAATAAAACC-GAGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAA
193 GTGTCTTGAAAATAAAACCAGA-GTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAA
210217 TAAAAC
257 TAAAAC
* * *
210223 CGGGGTTGTAGTA-CCCTCGATTATGA-AAATCAATATTTTAGAAATAAAGTCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCC-CAATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTA
* * *
210286 TCCCCTCGAAAATAATGGGGTTAGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTG
65 TCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
* * *
210351 TGAAAATTTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGT
130 TGAAAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
*
210416 GTCTTGAAAATAAAATCAGAGTTGGAGTAT
195 GTCTTGAAAATAAAACCAGAGTTGGAGTAT
210446 ATTGCCCAAG
Statistics
Matches: 202, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
261 33 0.16
262 38 0.19
263 111 0.55
264 20 0.10
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (262 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGT
GAAAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTG
TCTTGAAAATAAAACCAGAGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAA
AC
Found at i:210339 original size:27 final size:27
Alignment explanation
Indices: 210273--210348 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
210263 GAAATAAAGT
210273 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAAATAA
* * * *
210301 TGGGGTTAGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
210328 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
210349 TGTGAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.07
27 26 0.63
28 12 0.29
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:210441 original size:51 final size:52
Alignment explanation
Indices: 210332--210445 Score: 151
Period size: 51 Copynumber: 2.2 Consensus size: 52
210322 GATTAACGGG
* * * * *
210332 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAATTTAGTG-TTCTTGAAAATAAAATCAGA
210385 GTTGGAGTATCCCCGATTATAGAAAA-TTAGTG-TCTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTTAGTGTTCTTGAAAATAAAATCAGA
210436 GTTGGAGTAT
1 GTTGGAGTAT
210446 ATTGCCCAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
51 26 0.47
53 24 0.44
54 5 0.09
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAATTTAGTGTTCTTGAAAATAAAATCAGA
Found at i:215093 original size:9 final size:9
Alignment explanation
Indices: 215072--215142 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
215062 TCTCTTCAAA
*
215072 AAAAAAAGC
1 AAAAAAAGA
*
215081 AAAAGAA-A
1 AAAAAAAGA
*
215089 AAAAAAGGA
1 AAAAAAAGA
*
215098 AAAAAAACA
1 AAAAAAAGA
*
215107 AAAAAAACA
1 AAAAAAAGA
*
215116 AAACAAAGA
1 AAAAAAAGA
*
215125 AAAAGAGAGA
1 AAAA-AAAGA
215135 AAAGAAAA
1 AAA-AAAA
215143 AACCTACTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
8 5 0.10
9 33 0.69
10 9 0.19
11 1 0.02
ACGTcount: A:0.82, C:0.06, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:215144 original size:34 final size:34
Alignment explanation
Indices: 215069--215144 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
215059 TCTTCTCTTC
*
215069 AAAAAAAAAAGCAAAAGAAAAAAAAAGGAAAAAA
1 AAAAAAAAAAGCAAAACAAAAAAAAAGGAAAAAA
* *
215103 AACAAAAAAAA-CAAAACAAAGAAAAAGAGAGAAAA
1 AA-AAAAAAAAGCAAAACAAAAAAAAAG-GAAAAAA
*
215138 GAAAAAA
1 AAAAAAA
215145 CCTACTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 21 0.58
35 15 0.42
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (34 bp):
AAAAAAAAAAGCAAAACAAAAAAAAAGGAAAAAA
Found at i:216200 original size:55 final size:55
Alignment explanation
Indices: 216110--216345 Score: 316
Period size: 55 Copynumber: 4.3 Consensus size: 55
216100 TCCGCTTTTT
*
216110 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
216165 GGTCCCCAAAGAGCATGACACCTCTTAAAGCCCACACAATTTGGTGGCA-TTTTCC
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* * * *
216220 AGTCCTCAAAGAGCAAGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
216275 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
216330 AGTCCTCAAAGAGCAG
1 AGTCCCCAAAGAGCAG
216346 TGAAAGCTTA
Statistics
Matches: 158, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
54 7 0.04
55 148 0.94
56 3 0.02
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (55 bp):
AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:216305 original size:110 final size:110
Alignment explanation
Indices: 216110--216344 Score: 391
Period size: 110 Copynumber: 2.1 Consensus size: 110
216100 TCCGCTTTTT
* * *
216110 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCGGTCCCCAAA
1 AGTCCTCAAAGAGCAAGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
* *
216175 GAGCATGACACCTCTTAAAGCCCACACAATTTGGTGGCATTTTCC
66 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
216220 AGTCCTCAAAGAGCAAGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAA
1 AGTCCTCAAAGAGCAAGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
*
216285 GAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCATTTTCC
66 GAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
216330 AGTCCTCAAAGAGCA
1 AGTCCTCAAAGAGCA
216345 GTGAAAGCTT
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
109 2 0.02
110 115 0.98
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (110 bp):
AGTCCTCAAAGAGCAAGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:217110 original size:13 final size:13
Alignment explanation
Indices: 217092--217117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
217082 CAATTTTTTG
217092 TGTATCGATACAT
1 TGTATCGATACAT
217105 TGTATCGATACAT
1 TGTATCGATACAT
217118 ACTTGATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:217202 original size:20 final size:20
Alignment explanation
Indices: 217177--217249 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
217167 CAACTTTTTT
217177 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
217197 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
217218 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
217238 ATGTATCGATAC
1 ATGTATCGATAC
217250 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:217215 original size:41 final size:41
Alignment explanation
Indices: 217156--217249 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
217146 CTGCCAAGAA
*
217156 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
217197 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
217238 ATGTATCGATAC
1 ATGTATCGATAC
217250 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:217231 original size:21 final size:21
Alignment explanation
Indices: 217156--217231 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
217146 CTGCCAAGAA
* *
217156 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
217177 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
217197 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
217218 ATGTATCGATACAT
1 ATGTATCGATACAT
217232 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:219712 original size:13 final size:13
Alignment explanation
Indices: 219694--219731 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
219684 ATAAACACCC
219694 TGTATCGATACAG
1 TGTATCGATACAG
*
219707 TGTATCGATACAT
1 TGTATCGATACAG
219720 TGTATCGATACA
1 TGTATCGATACA
219732 AATAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:221830 original size:15 final size:15
Alignment explanation
Indices: 221810--221840 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
221800 ATTTCGTTTG
*
221810 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
221825 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
221840 G
1 G
221841 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:225920 original size:13 final size:13
Alignment explanation
Indices: 225902--225927 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
225892 CAATTTTTTG
225902 TGTATCGATACAT
1 TGTATCGATACAT
225915 TGTATCGATACAT
1 TGTATCGATACAT
225928 ACTTGATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:226012 original size:20 final size:20
Alignment explanation
Indices: 225987--226059 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
225977 CAACTTTTTT
225987 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
226007 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
226028 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
226048 ATGTATCGATAC
1 ATGTATCGATAC
226060 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:226025 original size:41 final size:41
Alignment explanation
Indices: 225966--226059 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
225956 CTGCCAAGAA
*
225966 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
226007 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
226048 ATGTATCGATAC
1 ATGTATCGATAC
226060 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:226041 original size:21 final size:21
Alignment explanation
Indices: 225966--226041 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
225956 CTGCCAAGAA
* *
225966 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
225987 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
226007 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
226028 ATGTATCGATACAT
1 ATGTATCGATACAT
226042 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:226389 original size:29 final size:29
Alignment explanation
Indices: 226356--226446 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
226346 TAACAAGCAG
226356 GGCACCTCTTAAAGTCCACACAAGTTGGT
1 GGCACCTCTTAAAGTCCACACAAGTTGGT
* * ***
226385 GGCACCT-TT-CAGTCCCCA-AAGACCAG-
1 GGCACCTCTTAAAGTCCACACAAG-TTGGT
* *
226411 GACACCTCTTAAAGCCCACACAAGTTGGT
1 GGCACCTCTTAAAGTCCACACAAGTTGGT
226440 GGCACCT
1 GGCACCT
226447 TCAGTCCTCA
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
26 9 0.20
27 10 0.23
28 9 0.20
29 16 0.36
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (29 bp):
GGCACCTCTTAAAGTCCACACAAGTTGGT
Found at i:226500 original size:59 final size:60
Alignment explanation
Indices: 226364--226641 Score: 337
Period size: 55 Copynumber: 4.8 Consensus size: 60
226354 AGGGCACCTC
* * * *
226364 TTAAAGTCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGACCAGGACACC---TC--
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTT
*
226419 TTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTTCTT
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTT
* * *
226478 TTAAAGCCCACCCAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCTTTTTCTT
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTT
*
226537 TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC-TTTC--
1 TT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTT
* * * * *
226595 --AAAGCCCACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
1 TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
226642 TACACTTTAT
Statistics
Matches: 200, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
54 21 0.10
55 68 0.34
57 2 0.01
59 57 0.28
60 28 0.14
61 24 0.12
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (60 bp):
TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTT
Found at i:227461 original size:19 final size:19
Alignment explanation
Indices: 227437--227504 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
227427 AATTCAACAA
227437 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
227456 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
227471 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
227488 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
227505 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:227476 original size:13 final size:13
Alignment explanation
Indices: 227458--227482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
227448 ACATAAGTTT
227458 TGTATCGATACAA
1 TGTATCGATACAA
227471 TGTATCGATACA
1 TGTATCGATACA
227483 TAAGTATTGT
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:227480 original size:32 final size:32
Alignment explanation
Indices: 227439--227501 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
227429 TTCAACAATT
*
227439 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
227471 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
227502 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:227562 original size:13 final size:13
Alignment explanation
Indices: 227544--227569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
227534 CATTTTTCTG
227544 TGTATCGATACAT
1 TGTATCGATACAT
227557 TGTATCGATACAT
1 TGTATCGATACAT
227570 GCATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:227566 original size:33 final size:33
Alignment explanation
Indices: 227524--227590 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
227514 GCCAAGGAAA
***
227524 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGCATCTGTGTATCGATACAT
*
227557 TGTATCGATACATGCATCTTTGTATCGATACAT
1 TGTATCGATACATGCATCTGTGTATCGATACAT
227590 T
1 T
227591 TGGAAATTTT
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:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGCATCTGTGTATCGATACAT
Found at i:230119 original size:28 final size:27
Alignment explanation
Indices: 230048--230123 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
230038 TTTCTTCACA
*
230048 ATCGAGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
230075 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
230101 TTCGAAGGGATACTCCAACCCCG
1 ATCG--GGGATACTCCAACCCCG
230124 GTTTTATTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.11
27 22 0.50
28 17 0.39
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:230174 original size:52 final size:51
Alignment explanation
Indices: 230107--230276 Score: 184
Period size: 52 Copynumber: 3.3 Consensus size: 51
230097 TATTTTCGAA
*
230107 GGGATACTCCAACCCCGGTTTTATTACTAAAACACTAATTTTTTCACAATCG
1 GGGATACTCCAACCCCGGTTTTATT-CTAAAACACCAATTTTTTCACAATCG
* * *
230159 GGGATACTCCAACCCCGGTTTTATTTTCAAAACGCCAATTTTCCTT--TAATCG
1 GGGATACTCCAACCCCGGTTTTATTCT-AAAACACCAATTTT--TTCACAATCG
* * * *
230211 GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAA-TTTTTCACAATCG
1 GGGATACTCCAACCCCGGTTTTA-TT-CTAAAACACCAATTTTTTCACAATCG
*
230263 AGGATACTCCAACC
1 GGGATACTCCAACC
230277 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
50 2 0.02
51 1 0.01
52 83 0.85
53 10 0.10
54 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGTTTTATTCTAAAACACCAATTTTTTCACAATCG
Found at i:230255 original size:104 final size:104
Alignment explanation
Indices: 229939--230276 Score: 319
Period size: 104 Copynumber: 3.2 Consensus size: 104
229929 CTCAATTCTC
* * * * * *
229939 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
230003 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
66 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* ** * * * ** **
230044 CACAATCGAGGATACTCCAACCCC-G-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTTCG
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTC---AAAACACCAATTTTCC-TT-TAATCG
* * * * *
230105 AAGGGATACTCCAACCCCGGTTTTA-TTACTAAAACACTAATTTTTT
61 --GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA-TTTTT
* *
230151 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGAT
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
230216 ACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
66 ACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
230255 CACAATCGAGGATACTCCAACC
1 CACAATCGAGGATACTCCAACC
230277 TCGTTATTTC
Statistics
Matches: 179, Mismatches: 40, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
103 6 0.03
104 47 0.26
105 33 0.18
106 18 0.10
107 40 0.22
108 9 0.05
109 26 0.15
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (104 bp):
CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
ACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:230295 original size:28 final size:28
Alignment explanation
Indices: 230259--230335 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
230249 ATTTTTCACA
* * *
230259 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
230287 ATCGGGGATATTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
230315 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
230336 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:230306 original size:212 final size:212
Alignment explanation
Indices: 229939--230343 Score: 643
Period size: 212 Copynumber: 1.9 Consensus size: 212
229929 CTCAATTCTC
* * *
229939 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
*
230004 CTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
66 CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
* * *
230069 TTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTATTAC
131 TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCGGCTTTATTAC
230134 TAAAACACTAATTTTTT
196 TAAAACACTAATTTTTT
* * *
230151 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGAT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGAT
* *
230216 ACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTC
65 ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCC
* * *
230279 GTTATTTCATCGGGGATATTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATT
130 GTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCGGCTTTATT
230344 CCCAAAATAT
Statistics
Matches: 176, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
211 29 0.16
212 112 0.64
213 35 0.20
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAAGGGATACTCCAACCCCGGCTTTATTAC
TAAAACACTAATTTTTT
Found at i:238278 original size:51 final size:53
Alignment explanation
Indices: 238214--238555 Score: 203
Period size: 52 Copynumber: 6.5 Consensus size: 53
238204 AGTTTCTCAA
* * * *
238214 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
238265 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
238319 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * * * *
238377 TAT-TTC-CGA--GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * * *
238426 TT-TTCCACAATCGGAGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAA-T
* *
238479 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
238531 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
238556 CTCGTTATTT
Statistics
Matches: 223, Mismatches: 40, Indels: 55
0.70 0.13 0.17
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 33 0.15
52 81 0.36
53 33 0.15
54 29 0.13
55 24 0.11
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:238358 original size:27 final size:28
Alignment explanation
Indices: 238328--238403 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
238318 TTTCTTCACA
238328 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
238355 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
238383 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
238404 GTTTTATTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:238539 original size:104 final size:103
Alignment explanation
Indices: 238219--238556 Score: 292
Period size: 104 Copynumber: 3.2 Consensus size: 103
238209 CTCAATTCTC
* * * * *
238219 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGAGATACTCCAAC-CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
238283 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * ** * * * ** * *
238324 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGGAGATACTCCAACCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
* * * * *
238386 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
238430 CCACAATCGGAGATACTCCAATCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGAGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
238495 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
238535 CACAATC-GAGGATACTCCAACC
1 CACAATCGGA-GATACTCCAACC
238557 TCGTTATTTC
Statistics
Matches: 179, Mismatches: 39, Indels: 32
0.72 0.16 0.13
Matches are distributed among these distances:
103 10 0.06
104 41 0.23
105 39 0.22
106 17 0.09
107 33 0.18
108 12 0.07
109 27 0.15
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (103 bp):
CACAATCGGAGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:238575 original size:28 final size:28
Alignment explanation
Indices: 238539--238615 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
238529 ATTTTTCACA
* * *
238539 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
238567 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
238595 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
238616 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:238584 original size:212 final size:212
Alignment explanation
Indices: 238217--238620 Score: 634
Period size: 212 Copynumber: 1.9 Consensus size: 212
238207 TTCTCAATTC
* * *
238217 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGAGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
238282 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
238347 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATT
238412 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
238429 TCCACAATCGGAGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGAGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
238493 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
238556 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCCGATTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTT
238621 TTTTTCTTCT
Statistics
Matches: 175, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 29 0.17
212 111 0.63
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGAGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATT
GCTAAAACACTAATTTT
Found at i:239847 original size:52 final size:51
Alignment explanation
Indices: 239783--239951 Score: 173
Period size: 52 Copynumber: 3.3 Consensus size: 51
239773 ATTTTCGAGG
239783 GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGA
1 GGATACTCCAACCCCGGTTTTATT-CTAAAACACTAATTTTTCCACAATCGA
* * ** *
239835 GGATACTCCAACCCCGGTTTTATTTTCAAAAC-GTCAA-TTTTCCTTTAATCGG
1 GGATACTCCAACCCCGGTTTTATTCT-AAAACACT-AATTTTTCC-ACAATCGA
* * * * *
239887 GGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATCGA
1 GGATACTCCAACCCCGGTTTTA-TT-CTAAAACACTAATTTTTCCACAATCGA
239939 GGATACTCCAACC
1 GGATACTCCAACC
239952 TCGTTATTTC
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
51 8 0.09
52 73 0.78
53 9 0.10
54 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCCCGGTTTTATTCTAAAACACTAATTTTTCCACAATCGA
Found at i:239970 original size:28 final size:29
Alignment explanation
Indices: 239934--240010 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
239924 ATTTTTCACA
* * *
239934 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
239962 ATCGGGGATACTCCAACCCCGTTACTTCC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
*
239991 A-AGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
240011 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 40 0.91
29 4 0.09
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTACTTCC
Found at i:242186 original size:22 final size:20
Alignment explanation
Indices: 242136--242187 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
242126 TTAGACATAG
242136 TGAAGATGACAAAAATGCAA
1 TGAAGATGACAAAAATGCAA
*
242156 GGAAG-TGACAAATAGGATGC-A
1 TGAAGATGACAAA-A--ATGCAA
242177 TGAAGATGACA
1 TGAAGATGACA
242188 TCAAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 7 0.27
20 5 0.19
21 5 0.19
22 9 0.35
ACGTcount: A:0.48, C:0.10, G:0.27, T:0.15
Consensus pattern (20 bp):
TGAAGATGACAAAAATGCAA
Found at i:243857 original size:22 final size:21
Alignment explanation
Indices: 243832--243875 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
243822 AATTTTGAAT
*
243832 TTCAATAATTTGTATCGATACA
1 TTCAATAA-ATGTATCGATACA
*
243854 TTCAGTAAATGTATCGATACA
1 TTCAATAAATGTATCGATACA
243875 T
1 T
243876 AAGTTTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:243917 original size:17 final size:17
Alignment explanation
Indices: 243863--243927 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
243853 ATTCAGTAAA
243863 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG--T
*
243882 TGTATC-A-ATATAA--
1 TGTATCGATACATAAGT
243895 TGTATCGATACATAAGT
1 TGTATCGATACATAAGT
243912 TGTATCGATACA-AAGT
1 TGTATCGATACATAAGT
243928 ATCGCTACGA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
13 6 0.15
14 1 0.03
15 5 0.12
16 4 0.10
17 17 0.43
18 1 0.03
19 6 0.15
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (17 bp):
TGTATCGATACATAAGT
Found at i:243974 original size:21 final size:21
Alignment explanation
Indices: 243948--243989 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
243938 AGCTACTATC
243948 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
243969 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
243990 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:243994 original size:13 final size:13
Alignment explanation
Indices: 243976--244001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
243966 ATTAAGGAAA
243976 TGTATCGATACAT
1 TGTATCGATACAT
243989 TGTATCGATACAT
1 TGTATCGATACAT
244002 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:246303 original size:51 final size:53
Alignment explanation
Indices: 246247--246369 Score: 171
Period size: 51 Copynumber: 2.4 Consensus size: 53
246237 CAATTCTCCG
* *
246247 CAATCGGGGATATTCCAACTTCGATTTTATTT-T-CAAAACACCAA-TTTTCTA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCTACAAAACACCAATTTTTC-A
* * *
246298 TAATCGGGGATACTCTAACTCCGATTTTATTTCTAGAAAACACCAATTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCTACAAAACACCAATTTTTCA
246351 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
246370 CTCGTTAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
51 28 0.45
52 1 0.02
53 28 0.45
54 5 0.08
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (53 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCTACAAAACACCAATTTTTCA
Found at i:246359 original size:53 final size:51
Alignment explanation
Indices: 246247--246369 Score: 167
Period size: 53 Copynumber: 2.4 Consensus size: 51
246237 CAATTCTCCG
* *
246247 CAATCGGGGATATTCCAACTTCGATTTTATTTTCAAAACACCAATTTTCTA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTA
* * *
246298 TAATCGGGGATACTCTAACTCCGATTTTATTTCTAGAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTT-T-CAAAACACCAATTTTCT-A
246351 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
246370 CTCGTTAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
51 28 0.45
52 2 0.03
53 32 0.52
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTA
Found at i:246470 original size:79 final size:78
Alignment explanation
Indices: 246380--246584 Score: 268
Period size: 79 Copynumber: 2.6 Consensus size: 78
246370 CTCGTTAATC
* * * * *
246380 ATCGGCGATACTCTAACCTCGTTATTTTCGAGGGGATACCCCAACCCTGGCTTTATTCTTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC-GGCTTTATT-TCAAAAT
* *
246445 -ATTGATTTCTCATA
64 CATCGATTTCTCACA
* * *
246459 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCGCGGTTTTATTTCCAAATC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-CGGCTTTATTTCAAAATC
*
246524 ATCGATTTTTCACA
65 ATCGATTTCTCACA
*
246538 ATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
246585 CGTTACTATC
Statistics
Matches: 111, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
78 6 0.05
79 104 0.94
80 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGGCTTTATTTCAAAATCA
TCGATTTCTCACA
Found at i:251173 original size:20 final size:20
Alignment explanation
Indices: 251150--251202 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
251140 TTTCAACGAT
*
251150 TTGTATTGATACAAAAAATA
1 TTGTATCGATACAAAAAATA
* *
251170 TTGTATCGATAC-ATAAATT
1 TTGTATCGATACAAAAAATA
251189 TTGTATCGATACAA
1 TTGTATCGATACAA
251203 TTTAAGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACAAAAAATA
Found at i:251262 original size:13 final size:12
Alignment explanation
Indices: 251222--251302 Score: 70
Period size: 13 Copynumber: 7.1 Consensus size: 12
251212 CTGCAAAAAA
251222 ATGTATCGATAC
1 ATGTATCGATAC
251234 AT-TACTC-A-A-
1 ATGTA-TCGATAC
251243 ATGTATCGATAC
1 ATGTATCGATAC
251255 ATTGTATCGATAC
1 A-TGTATCGATAC
251268 AT-TACTC-A-A-
1 ATGTA-TCGATAC
251277 ATGTATCGATAC
1 ATGTATCGATAC
251289 ATTGTATCGATAC
1 A-TGTATCGATAC
251302 A
1 A
251303 CTGATCTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 23
0.71 0.00 0.29
Matches are distributed among these distances:
9 8 0.14
10 8 0.14
11 8 0.14
12 9 0.16
13 24 0.42
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:251266 original size:34 final size:34
Alignment explanation
Indices: 251223--251302 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
251213 TGCAAAAAAA
251223 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
251257 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
251291 TGTATCGATACA
1 TGTATCGATACA
251303 CTGATCTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:256416 original size:27 final size:27
Alignment explanation
Indices: 256335--256416 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 27
256325 GACGCCTTTC
256335 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
** * * * ** ** *
256362 TCAGTCCTCAAAGAGCAGGACGCCTTTT
1 AAAGCCCACACA-AGTTGGTGGCATTTT
256390 AAAGCCCACACAAGTTGGTGGCATTTT
1 AAAGCCCACACAAGTTGGTGGCATTTT
256417 CCAGTCCTCA
Statistics
Matches: 34, Mismatches: 20, Indels: 2
0.61 0.36 0.04
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (27 bp):
AAAGCCCACACAAGTTGGTGGCATTTT
Found at i:256545 original size:61 final size:60
Alignment explanation
Indices: 256182--256558 Score: 438
Period size: 55 Copynumber: 6.4 Consensus size: 60
256172 CTTTTAGCCC
* * * *
256182 TTCCAATCCTCGAAGAGCAGGACACCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-
1 TTCCAGTCCTCAAAGAGCAGGACGCC--TTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACT
* *
256244 CTCCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCAC-
1 TTCCAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* * *
256304 TTCCTAGTCCTCAAAGAACAAGACGCCTTT-C----AAAGCCCACACAAGTTGGTGGCATT
1 TTCC-AGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* *
256360 TTTCAGTCCTCAAAGAGCAGGACG-----CCTTTTAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* * ** * *
256415 TTCCAGTCCTCAAAGAGCAGGATG-CTTTTCTTCCAAAGCCCACATAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
256474 TTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
1 TTCCAGTCCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACT
* *
256535 TTCTAATCCTCAAAGAGCAGGACG
1 TTCCAGTCCTCAAAGAGCAGGACG
256559 TTCTCTCATT
Statistics
Matches: 273, Mismatches: 28, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
51 1 0.00
55 88 0.32
56 3 0.01
59 50 0.18
60 33 0.12
61 76 0.28
62 22 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (60 bp):
TTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
Found at i:256704 original size:154 final size:158
Alignment explanation
Indices: 256420--256711 Score: 459
Period size: 154 Copynumber: 1.9 Consensus size: 158
256410 GCATTTTCCA
* * ** *
256420 GTCCTCAAAGAGCAGGATGCTTTTCTTCCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTC
1 GTCCTCAAAGAGCAGGATGCTCTTCTT-CAAAGCCCACACAAGCCGGTGGCACTTTCCAGTCCTC
*
256485 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAATCCTCAAAG
65 AAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAATCCTCAAAG
256550 AGCAGGACGTTCTCTCATTTCGCCTTTTT
130 AGCAGGACGTTCTCTCATTTCGCCTTTTT
256579 GTCCTCAAAGAGCAGGATGC-CTT-TT-AAAGCCCACACAAGCCGGTGGCACTTT-CAGTCCTCA
1 GTCCTCAAAGAGCAGGATGCTCTTCTTCAAAGCCCACACAAGCCGGTGGCACTTTCCAGTCCTCA
* *
256640 AAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTTAAAG
66 AAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCTAATCCTCAAAG
256704 AGCAGGAC
130 AGCAGGAC
256712 ACCTTTTAAA
Statistics
Matches: 124, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
154 72 0.58
155 28 0.23
157 2 0.02
158 2 0.02
159 20 0.16
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (158 bp):
GTCCTCAAAGAGCAGGATGCTCTTCTTCAAAGCCCACACAAGCCGGTGGCACTTTCCAGTCCTCA
AAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAATCCTCAAAGA
GCAGGACGTTCTCTCATTTCGCCTTTTT
Found at i:256737 original size:55 final size:54
Alignment explanation
Indices: 256579--256992 Score: 442
Period size: 55 Copynumber: 7.4 Consensus size: 54
256569 TCGCCTTTTT
* **
256579 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCCGGTGGCACTTTCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCA
*
256633 GTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCA
1 GTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCA
* * * *
256694 GTCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGAACTTCCTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-A
* * * *
256749 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGATGGCATTTTCCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CA
* *
256804 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGAGGCATTTTCTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-A
* * *
256859 GTCCTCAAAGAGCAGGATGCTTTTCTTCCAAAGCCCACACAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGACGC-CTT-TT--AAAGCCCACACAAGTTGGTGGCACTTT-CA
*
256918 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCGCACAAGTTGGTGGCAC--T--
1 GTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCA
256974 -TCCTCAAAGAGCAGGACGC
1 GTCCTCAAAGAGCAGGACGC
256993 TCTCTCCTTT
Statistics
Matches: 311, Mismatches: 28, Indels: 47
0.81 0.07 0.12
Matches are distributed among these distances:
49 1 0.00
54 22 0.07
55 160 0.51
56 3 0.01
57 2 0.01
59 46 0.15
60 28 0.09
61 44 0.14
63 2 0.01
64 2 0.01
65 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (54 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCA
Found at i:256932 original size:114 final size:113
Alignment explanation
Indices: 256579--256974 Score: 505
Period size: 110 Copynumber: 3.5 Consensus size: 113
256569 TCGCCTTTTT
* **
256579 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCCGGTGGCACTTTC-AGTCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAG
* * *
256643 AGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CA
66 AGCAGGACG-CTT-T-CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCA
* * * *
256694 GTCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGAACTTCCTAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAG
* *
256759 AGCAGGACGC---CTTTCAAAGCCCACACGAGTTGATGGCATTTTCCA
66 AGCAGGACGCTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* *
256804 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGAGGCATTTTCTAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAG
* *
256869 AGCAGGATGCTTTTCTTCCAAAGCCCACACAAGTTGGTGGCATTTTCCA
66 AGCAGGACGC-TTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
*
256918 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCGCACAAGTTGGTGGCACTT
1 GTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACTT
256975 CCTCAAAGAG
Statistics
Matches: 244, Mismatches: 25, Indels: 19
0.85 0.09 0.07
Matches are distributed among these distances:
109 3 0.01
110 95 0.39
114 51 0.21
115 47 0.19
116 19 0.08
120 29 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (113 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAG
AGCAGGACGCTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
Found at i:257108 original size:60 final size:61
Alignment explanation
Indices: 257031--257149 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
257021 GAGTAGGATG
257031 CCTTTTAAAACCCACACAAGCCGATGGCA-CTTTCAATCCTCAAAGAGCAAGACGCCTTCT
1 CCTTTTAAAACCCACACAAGCCGATGGCACCTTTCAATCCTCAAAGAGCAAGACGCCTTCT
** * * *
257091 CCTTTT-AAACCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTT
1 CCTTTTAAAACCC-ACACAAGCCGATGGCACCTTTCAATCCTCAAAGAGCAAGACGCCTT
257150 TTAAAGCCCA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
59 6 0.12
60 19 0.37
61 27 0.52
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.24
Consensus pattern (61 bp):
CCTTTTAAAACCCACACAAGCCGATGGCACCTTTCAATCCTCAAAGAGCAAGACGCCTTCT
Found at i:257150 original size:148 final size:147
Alignment explanation
Indices: 256859--257147 Score: 336
Period size: 148 Copynumber: 1.9 Consensus size: 147
256849 GCATTTTCTA
* * ** * * *
256859 GTCCTCAAAGAGCAGGATGCTTTTCTTCCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 GTCCTCAAAGAGCAGGATGCTCTTCTT-CAAAACCCACACAAGCCGATGGCACTTTCCAATCCTC
* *
256924 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCGCACAAGTTGGTGGCACTTCCTCAAAGAGCAGG
65 AAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTCAAAGAGCAGG
256989 ACGCTCTCTCCTTTCACCTTTTT
130 ACG----C-CCTTTCACCTTTTT
*
257012 GTCCTCAAAGAGTAGGATGC-CTT-TT-AAAACCCACACAAGCCGATGGCACTTT-CAATCCTCA
1 GTCCTCAAAGAGCAGGATGCTCTTCTTCAAAACCCACACAAGCCGATGGCACTTTCCAATCCTCA
257073 AAGAGCAAGACGCCTTCTCCTTTTAAA-CCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
66 AAGAGCAAGACGCCTTCTCCTTTTAAAGCCC-ACACAAGTTGGTGGCA-C--T---TCCTCAAAG
257137 AGCAGGACGCC
124 AGCAGGACGCC
257148 TTTTAAAGCC
Statistics
Matches: 119, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
147 3 0.03
148 49 0.41
149 24 0.20
150 1 0.01
151 3 0.03
152 2 0.02
153 19 0.16
154 18 0.15
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (147 bp):
GTCCTCAAAGAGCAGGATGCTCTTCTTCAAAACCCACACAAGCCGATGGCACTTTCCAATCCTCA
AAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTCAAAGAGCAGGA
CGCCCTTTCACCTTTTT
Found at i:257163 original size:55 final size:54
Alignment explanation
Indices: 257012--257369 Score: 367
Period size: 55 Copynumber: 6.3 Consensus size: 54
257002 TCACCTTTTT
* * * ** *
257012 GTCCTCAAAGAGTAGGATGCCTTTTAAAACCCACACAAGCCGATGGCACTTTCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCA
* *
257066 ATCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAA-CCCTACACAAGTTGGTGGCACCTTTCA
1 GTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCC-ACACAAGTTGGTGGCA-CTTTCA
*
257127 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-A
* * * * *
257182 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACGAGTTGATGGCATTTTCCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CA
* * *
257237 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACGAGTTGGTGGCACTTCTCA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TCA
* * *
257292 GTCCTTAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTA
1 GTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-A
257353 GTCCTCAAAGAGCAGGA
1 GTCCTCAAAGAGCAGGA
257370 TGCTCTCTCT
Statistics
Matches: 260, Mismatches: 25, Indels: 31
0.82 0.08 0.10
Matches are distributed among these distances:
54 19 0.07
55 140 0.54
56 5 0.02
58 1 0.00
59 3 0.01
60 24 0.09
61 68 0.26
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (54 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCA
Found at i:257198 original size:433 final size:435
Alignment explanation
Indices: 256185--257369 Score: 1867
Period size: 433 Copynumber: 2.7 Consensus size: 435
256175 TTAGCCCTTC
* * * * * *
256185 CAATCCTCGAAGAGCAGGACACCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TCCA
1 CAATCCTCAAAGAGCAAGACGCC-TTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCA
256249 GTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
64 GTCCTCAAAGAGCAGGACG----C-C-TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCC
* * * * *
256314 TCAAAGAACAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCA
123 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGATGGCATTTTCCAGTCCTCAAAGAGCA
*
256379 GGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTT
188 GGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTT
*
256444 CTTCCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
253 CTTCCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTT
* *
256509 TAAAGCCCACACAAGTTGGTGGCACTTTCTAATCCTCAAAGAGCAGGACGTTCTCTCATTTCGCC
318 TAAAGCCCACACAAGTTGGTGGCA---TCT-ATCCTCAAAGAGCAGGACGCTCTCTCATTTCACC
* *
256574 TTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCCGGTGGCACTTT
379 TTTTTGTCCTCAAAGAGCAGGATGCCTTTTAAAACCCACACAAGCCGATGGCACTTT
*
256631 CAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CAATCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * *
256696 CCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGAACTTCCTAGTCCTCAAAGAG
66 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
256761 CAGGACGCCTTTCAAAGCCCACACGAGTTGATGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCT
131 CAGGACGCCTTTCAAAGCCCACACGAGTTGATGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCT
*
256826 TTTAAAGCCCACACAAGTTGGAGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTCTTCCAAA
196 TTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTCTTCCAAA
256891 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCC
261 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCC
* *
256956 GCACAAGTTGGTGGCA-CT-TCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCTTTTTGTCCTCA
326 ACACAAGTTGGTGGCATCTATCCTCAAAGAGCAGGACGCTCTCTCATTTCACCTTTTTGTCCTCA
*
257019 AAGAGTAGGATGCCTTTTAAAACCCACACAAGCCGATGGCACTTT
391 AAGAGCAGGATGCCTTTTAAAACCCACACAAGCCGATGGCACTTT
257064 CAATCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAA-CCCTACACAAGTTGGTGGCACCTTTCAG
1 CAATCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCC-ACACAAGTTGGTGGCACCTTTCAG
257128 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGA
65 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGA
*
257193 GCAGGACGCCTTTCAAAGCCCATACGAGTTGATGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC
130 GCAGGACGCCTTTCAAAGCCCACACGAGTTGATGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC
* * * * * *
257258 TTTCAAAGCCCATACGAGTTGGTGGCA-CTTCTCAGTCCTTAAAGAGCAGGATGCCTTTTCCTTT
195 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCT-AGTCCTCAAAGAGCAGGATG-CTTTT-CTTC
* ** *
257322 TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA
257 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
257370 TGCTCTCTCT
Statistics
Matches: 693, Mismatches: 41, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
432 7 0.01
433 311 0.45
434 5 0.01
435 49 0.07
439 247 0.36
440 1 0.00
441 1 0.00
444 25 0.04
445 28 0.04
446 19 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (435 bp):
CAATCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
CAGGACGCCTTTCAAAGCCCACACGAGTTGATGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCT
TTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTCTTCCAAA
GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCC
ACACAAGTTGGTGGCATCTATCCTCAAAGAGCAGGACGCTCTCTCATTTCACCTTTTTGTCCTCA
AAGAGCAGGATGCCTTTTAAAACCCACACAAGCCGATGGCACTTT
Found at i:257451 original size:55 final size:57
Alignment explanation
Indices: 257386--257525 Score: 187
Period size: 62 Copynumber: 2.4 Consensus size: 57
257376 CTCTTTTCAC
257386 CCTTTAGTCCTCAAAGAGCAGGATG-C-C-TTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
257440 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACTCAAGTTGGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAGGATGCC----TCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
257502 CTTTGTAGTCCTCAAAGAGCAGGA
1 CCTT-TAGTCCTCAAAGAGCAGGA
257526 CGCACTTTAT
Statistics
Matches: 75, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
54 5 0.07
55 20 0.27
56 1 0.01
61 1 0.01
62 47 0.63
63 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (57 bp):
CCTTTAGTCCTCAAAGAGCAGGATGCCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:257565 original size:42 final size:41
Alignment explanation
Indices: 257509--257729 Score: 230
Period size: 42 Copynumber: 5.1 Consensus size: 41
257499 GCACTTTGTA
257509 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCT-TTTCTTTT
*
257551 GTCCTCAAAGAGCAGGACGCA-TTTCGTTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTT-ATTTTCCTTTTCT--TTT
* *
257594 GTCCTCAAAGAGCAGGACGCTCTTTATTTCCTTCTTTTCCTTTCT
1 GTCCTCAAAGAGCAGGACGCACTTTATTT--TCCTTTT-CTTT-T
* *
257639 AGTCCTCAAAGAGCAGGATGCACTTTATTTTCGTTTTCCTTTT
1 -GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTT-CTTTT
* * * * *
257682 ATCCTCAGAGAGCAGGACGCA-TTTCGTTTCCCTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTT-ATTTTCC-TTTTCTTTT
257724 GTCCTC
1 GTCCTC
257730 GAAAAACAGG
Statistics
Matches: 152, Mismatches: 16, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
41 11 0.07
42 59 0.39
43 31 0.20
44 15 0.10
45 7 0.05
46 29 0.19
ACGTcount: A:0.17, C:0.27, G:0.15, T:0.40
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTCTTTT
Found at i:257807 original size:42 final size:41
Alignment explanation
Indices: 257755--257876 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 41
257745 CTCTTTTTCA
257755 CCTTGTCCTCAAGAAGCAGGACACTTTCCTTTCCTTCTTTT
1 CCTTGTCCTCAAGAAGCAGGACACTTTCCTTTCCTTCTTTT
* * * *
257796 CCTTCGTCCTCAAGGAGCAAGAC-CTATTTCATT-C-TCTTTT
1 CCTT-GTCCTCAAGAAGCAGGACACT-TTCCTTTCCTTCTTTT
* **
257836 CCTTTGTCCTCAAAAAGTGGGACACCCTTTCCATTTCCTTC
1 CC-TTGTCCTCAAGAAGCAGGACA--CTTTCC-TTTCCTTC
257877 CCCTTCTAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
40 21 0.34
41 9 0.15
42 24 0.39
43 4 0.07
44 1 0.02
45 2 0.03
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.37
Consensus pattern (41 bp):
CCTTGTCCTCAAGAAGCAGGACACTTTCCTTTCCTTCTTTT
Found at i:258559 original size:21 final size:22
Alignment explanation
Indices: 258523--258566 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
258513 AATTTTGAAT
*
258523 TTCAATAATTTGTATCGATACA
1 TTCAATAATATGTATCGATACA
*
258545 TTCAATAA-ATGTATCGCTACA
1 TTCAATAATATGTATCGATACA
258566 T
1 T
258567 AAGTTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (22 bp):
TTCAATAATATGTATCGATACA
Found at i:258633 original size:21 final size:21
Alignment explanation
Indices: 258607--258649 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
258597 AGCTACTACC
*
258607 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCAATACATT
*
258628 AAGGAAATGTATCAATATATT
1 AAGGAAATGTATCAATACATT
258649 A
1 A
258650 TATCGATACA
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:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (21 bp):
AAGGAAATGTATCAATACATT
Found at i:258675 original size:20 final size:20
Alignment explanation
Indices: 258650--258701 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
258640 CAATATATTA
*
258650 TATCGATACATCGATTTTTG
1 TATCGATACATCGATCTTTG
258670 TATCGATACATCGATCTTTG
1 TATCGATACATCGATCTTTG
258690 TATCGATACATC
1 TATCGATACATC
258702 TAGGAAGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (20 bp):
TATCGATACATCGATCTTTG
Found at i:261109 original size:51 final size:52
Alignment explanation
Indices: 261044--261168 Score: 155
Period size: 51 Copynumber: 2.4 Consensus size: 52
261034 CTCAATTGTC
* *
261044 CACAATCGGAGATATTCCAACTCCGATTTTATTTTC-AAAACACCAA-TTTT
1 CACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
* * * *
261094 CTATAATGGGGGATATTCTAACTCCGTTTTTATTTCCAGAAAACACCAATTTTT
1 C-ACAATCGGGGATATTCCAACTCCGATTTTATTTCCA-AAAACACCAATTTTT
*
261148 CACAATCGGGGATACTCCAAC
1 CACAATCGGGGATATTCCAAC
261169 CCCGTTAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
50 1 0.02
51 29 0.48
53 26 0.43
54 5 0.08
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (52 bp):
CACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:261174 original size:53 final size:50
Alignment explanation
Indices: 261044--261174 Score: 154
Period size: 53 Copynumber: 2.5 Consensus size: 50
261034 CTCAATTGTC
* * *
261044 CACAATCGGAGATATTCCAACTCCGATTTTATTTTCAAAACACCAATTTT
1 CACAATCGGGGATATTCCAACTCCGTTTTTATTTCCAAAACACCAATTTT
* * *
261094 CTATAATGGGGGATATTCTAACTCCGTTTTTATTTCCAGAAAACACCAATTTTT
1 C-ACAATCGGGGATATTCCAACTCCGTTTTTATTTCC--AAAACACCAA-TTTT
* *
261148 CACAATCGGGGATACTCCAACCCCGTT
1 CACAATCGGGGATATTCCAACTCCGTT
261175 AATCATCGGC
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
50 1 0.02
51 29 0.44
53 31 0.47
54 5 0.08
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (50 bp):
CACAATCGGGGATATTCCAACTCCGTTTTTATTTCCAAAACACCAATTTT
Found at i:261269 original size:79 final size:78
Alignment explanation
Indices: 261179--261462 Score: 381
Period size: 79 Copynumber: 3.6 Consensus size: 78
261169 CCCGTTAATC
* * * * *
261179 ATCGGCGATACTCTAACCCCGTTATTTTCGAGGGGATACCCCAACCCCT-GCTTTATTCTTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCTGGCTTTATT-TCAAAA
261243 TATTGATTTCTCATA
64 TATTGATTTCTCATA
261258 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTATTT-CAAAAT
*
261323 ATTAATTTCTCATA
65 ATTGATTTCTCATA
* * * *
261337 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCTGGTTTTATTTCCAACTC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTATTTCAAAAT-
* * *
261402 ATCGATTTTTCACA
65 ATTGATTTCTCATA
* * *
261416 ATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATGCTCCAACCC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCC
261463 CGTTACTATC
Statistics
Matches: 184, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
78 9 0.05
79 175 0.95
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTATTTCAAAATA
TTGATTTCTCATA
Found at i:261361 original size:158 final size:158
Alignment explanation
Indices: 261179--261494 Score: 406
Period size: 158 Copynumber: 2.0 Consensus size: 158
261169 CCCGTTAATC
* * * *
261179 ATCGGCGATACTCTAACCCCGTTATTTTCGAGGGGATACCCCAACCCCT-GCTTTATTCTTAAAA
1 ATCGGCGATACTCCAACCCCGTTATCTCCGAGGGGATACCCCAA-CCCTGGCTTTATT-TCAAAA
* * * *
261243 T-ATTGATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTG
64 TCATCGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCC-C
*
261307 GCTT-TATTTCCAAAATATT-AATTTCTCATA
128 G-TTATATCTCCAAAATATTAAATTTCTCATA
* * * * *
261337 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCTGGTTTTATTTCCAACTC
1 ATCGGCGATACTCCAACCCCGTTATCTCCGAGGGGATACCCCAACCCTGGCTTTATTTCAAAATC
* * *
261402 ATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATGCTCCAACCCCGTT
66 ATCGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGTT
261467 ACTATCTCCAAAATATTAAATTTCTCAT
131 A-TATCTCCAAAATATTAAATTTCTCAT
261495 CGGGAAATAT
Statistics
Matches: 136, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
156 2 0.01
157 9 0.07
158 115 0.85
159 10 0.07
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (158 bp):
ATCGGCGATACTCCAACCCCGTTATCTCCGAGGGGATACCCCAACCCTGGCTTTATTTCAAAATC
ATCGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGTT
ATATCTCCAAAATATTAAATTTCTCATA
Found at i:261477 original size:79 final size:78
Alignment explanation
Indices: 261179--261494 Score: 350
Period size: 79 Copynumber: 4.0 Consensus size: 78
261169 CCCGTTAATC
* * * * **
261179 ATCGGCGATACTCTAACCCCGTTATTTTCGAGGGGATACCCCAACCC-CTGCTTTATTCTTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTC-GCTTTA-TCTCCAAA
261243 TATTGATTTCTCATA
64 TATTGATTTCTCATA
* *
261258 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTCGCTTTATCTCC-AAAT
*
261323 ATTAATTTCTCATA
65 ATTGATTTCTCATA
* * * * *
261337 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCTGGTTTTATTTCCAACTC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTCGCTTTATCTCCAAAT-
* * *
261402 ATCGATTTTTCACA
65 ATTGATTTCTCATA
* * *
261416 ATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATGCTCCAACCC-CG-TTACTATCTCCAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTCGCTT--TATCTCC-AA
*
261479 ATATTAAATTTCTCAT
63 ATATT-GATTTCTCAT
261495 CGGGAAATAT
Statistics
Matches: 203, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
77 2 0.01
78 6 0.03
79 185 0.91
80 10 0.05
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTCGCTTTATCTCCAAATA
TTGATTTCTCATA
Found at i:267638 original size:139 final size:139
Alignment explanation
Indices: 267388--267664 Score: 509
Period size: 139 Copynumber: 2.0 Consensus size: 139
267378 TTGAAAAGTC
* *
267388 AGTCGAATATAACTATTGTAGCTTACTTAGGATTCTATAGAAATAAAGTTGATAAAGTTTAGACT
1 AGTCGAATATAACTATTGTAGCTTACTTAGGACTCTATAGAAATAAAATTGATAAAGTTTAGACT
*
267453 TATCTAAAGATAGAGTTGATAAAGTTTAAATTTATTTAAGATTTTAAATTTTATAAATAACTGTA
66 TATCTAAAGATAGAGTTGATAAAGTTTAAACTTATTTAAGATTTTAAATTTTATAAATAACTGTA
267518 ATCTTAGTT
131 ATCTTAGTT
267527 AGTCGAATATAACTATTGTAGCTTACTTAGGACTCTATAGAAATAAAATTGATAAAGTTTAGACT
1 AGTCGAATATAACTATTGTAGCTTACTTAGGACTCTATAGAAATAAAATTGATAAAGTTTAGACT
* *
267592 TATCTAAAGATAGAGTTGATAAAGTTTAAACTTATTTGAGATTTTAAATTTTATAGATAACTGTA
66 TATCTAAAGATAGAGTTGATAAAGTTTAAACTTATTTAAGATTTTAAATTTTATAAATAACTGTA
267657 ATCTTAGT
131 ATCTTAGT
267665 CGTCAATTAA
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 133 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (139 bp):
AGTCGAATATAACTATTGTAGCTTACTTAGGACTCTATAGAAATAAAATTGATAAAGTTTAGACT
TATCTAAAGATAGAGTTGATAAAGTTTAAACTTATTTAAGATTTTAAATTTTATAAATAACTGTA
ATCTTAGTT
Found at i:269335 original size:1 final size:1
Alignment explanation
Indices: 269329--269375 Score: 67
Period size: 1 Copynumber: 47.0 Consensus size: 1
269319 AAAGTGTTTG
***
269329 AAAAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
269376 TTTAAATGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.94, C:0.00, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:269349 original size:18 final size:18
Alignment explanation
Indices: 269326--269375 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
269316 GATAAAGTGT
269326 TTGAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAA
269344 TTGAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAA
269362 ---AAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
269376 TTTAAATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.44
18 18 0.56
ACGTcount: A:0.88, C:0.00, G:0.04, T:0.08
Consensus pattern (18 bp):
TTGAAAAAAAAAAAAAAA
Found at i:269404 original size:21 final size:21
Alignment explanation
Indices: 269380--269436 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
269370 AAAAAATTTA
269380 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
269401 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
269422 AATGTATCGATACAT
1 AATGTATCGATACAT
269437 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:269516 original size:19 final size:19
Alignment explanation
Indices: 269492--269559 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
269482 AATTCAACAA
269492 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
269511 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
269526 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
269543 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
269560 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:269531 original size:13 final size:13
Alignment explanation
Indices: 269513--269537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
269503 ACATAAGTTT
269513 TGTATCGATACAA
1 TGTATCGATACAA
269526 TGTATCGATACA
1 TGTATCGATACA
269538 TAAGTATTGT
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:269535 original size:32 final size:32
Alignment explanation
Indices: 269494--269556 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
269484 TTCAACAATT
*
269494 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
269526 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
269557 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:269617 original size:13 final size:13
Alignment explanation
Indices: 269599--269624 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
269589 CATTTTTCTG
269599 TGTATCGATACAT
1 TGTATCGATACAT
269612 TGTATCGATACAT
1 TGTATCGATACAT
269625 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.