Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold108
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: 1249174
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.18
Warning! 531763 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:169333 original size:40 final size:40
Alignment explanation
Indices: 169283--169359 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
169273 ATGTATCGAT
*
169283 ACAATGTATCGATACAATGAACAACGTATCGATACAATGA
1 ACAACGTATCGATACAATGAACAACGTATCGATACAATGA
*
169323 ACAACGTATCGATACAATGAACAATGTATCGATACAA
1 ACAACGTATCGATACAATGAACAACGTATCGATACAA
169360 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.22
Consensus pattern (40 bp):
ACAACGTATCGATACAATGAACAACGTATCGATACAATGA
Found at i:170190 original size:45 final size:43
Alignment explanation
Indices: 170074--170201 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
170064 AGGGTAAAGG
* * *
170074 AAAAA-AGGAAAACAAAATGCGTCCTGCTCTTTGAGGACAAAA
1 AAAAAGAGGAAAATAAAGTGCGTTCTGCTCTTTGAGGACAAAA
170116 AAAAAGAGGAAAATAAAGTGCGTTCTGCTCTTTGAGGACAAAA
1 AAAAAGAGGAAAATAAAGTGCGTTCTGCTCTTTGAGGACAAAA
* * *
170159 GGGAAAAGAAGG-AAATGAAGTGTG-TCATGCTCTTTGAGGACAA
1 --AAAAAG-AGGAAAATAAAGTGCGTTC-TGCTCTTTGAGGACAA
170202 GGGAGAAAAG
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 5 0.07
43 34 0.45
44 2 0.03
45 31 0.41
46 3 0.04
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (43 bp):
AAAAAGAGGAAAATAAAGTGCGTTCTGCTCTTTGAGGACAAAA
Found at i:170210 original size:45 final size:44
Alignment explanation
Indices: 170070--170211 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 44
170060 TTCGAGGGTA
* * *
170070 AAGGA-AAAA-AGGAAAACAAAATGCGTCCTGCTCTTTGAGGAC
1 AAGGAGAAAAGAGGAAAATAAAGTGCGTTCTGCTCTTTGAGGAC
* *
170112 AA-AAAAAAAGAGGAAAATAAAGTGCGTTCTGCTCTTTGAGGAC
1 AAGGAGAAAAGAGGAAAATAAAGTGCGTTCTGCTCTTTGAGGAC
* *
170155 AAAAGG-GAAAAGAAGG-AAATGAAGTGTG-TCATGCTCTTTGAGGAC
1 --AAGGAGAAAAG-AGGAAAATAAAGTGCGTTC-TGCTCTTTGAGGAC
170200 AAGGGAGAAAAG
1 AA-GGAGAAAAG
170212 GAAAAGGCAT
Statistics
Matches: 83, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
41 1 0.01
42 6 0.07
43 32 0.39
44 4 0.05
45 37 0.45
46 3 0.04
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (44 bp):
AAGGAGAAAAGAGGAAAATAAAGTGCGTTCTGCTCTTTGAGGAC
Found at i:170286 original size:61 final size:61
Alignment explanation
Indices: 170206--170417 Score: 269
Period size: 61 Copynumber: 3.6 Consensus size: 61
170196 GGACAAGGGA
* *
170206 GAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGGGGGCTTT
1 GAAAA-GAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGCGGGCTTT
* * *
170268 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACAAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGCGGGCTTT
* **
170329 GCAAAGAGAAA-GCATCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGCGGGCTTT
1 GAAAAGA-AAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGCGGGCTTT
*
170389 ------AAAAGGCGTCCTGCTCTTTGAGGACTAAA
1 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAA
170418 GGGTGAAAGG
Statistics
Matches: 134, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.02
54 21 0.16
60 25 0.19
61 77 0.57
62 8 0.06
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (61 bp):
GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGCGGGCTTT
Found at i:170523 original size:55 final size:54
Alignment explanation
Indices: 170439--170623 Score: 253
Period size: 55 Copynumber: 3.3 Consensus size: 54
170429 GAGAGTGCCT
*
170439 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
* *
170494 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGATCC
1 TGCTCTTTGAGGACTAG-AAGTGCCACCAACTTGTGTGGGCTTTG-AAAG-G---CATCC
* *
170554 TGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCT
1 TGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
*
170608 TGCTTTTTGAGGACTA
1 TGCTCTTTGAGGACTA
170624 AAGGGCAAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
54 19 0.16
55 41 0.35
56 4 0.03
57 2 0.02
58 4 0.03
59 25 0.22
60 21 0.18
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (54 bp):
TGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
Found at i:170555 original size:154 final size:151
Alignment explanation
Indices: 170285--170569 Score: 387
Period size: 154 Copynumber: 1.8 Consensus size: 151
170275 AAAGGCGTCC
170285 TGCTCTTTGAGGACAAAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCT
1 TGCTCTTTGAGGACAAAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGAG--AGCATCCTGCT
* * **
170350 CTTTGAGGACTGGAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
63 CTTTGAGGACTGAAAATGCCACCAACTTGTGCGGGCTTTAAAAGAAGTCCTGCTCTTTGAGGACT
170415 AAAGGGTGAAAGGAGAGAGTGCCT
128 AAAGGGTGAAAGGAGAGAGTGCCT
****
170439 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTG-AA-AG-GCATCCTGCTCTT
1 TGCTCTTTGAGGACAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAGCATCCTGCTCTT
*
170501 TGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGATCCTGCTCTTTGAGG
66 TGAGGACT-GAAAATGCCACCAACTTGTGCGGGCTTT--AAA-AG-AAG-TCCTGCTCTTTGAGG
170566 ACTA
125 ACTA
170570 GAAGTGCCAC
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
148 21 0.18
149 25 0.22
151 5 0.04
152 4 0.03
153 1 0.01
154 60 0.52
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (151 bp):
TGCTCTTTGAGGACAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAGCATCCTGCTCTT
TGAGGACTGAAAATGCCACCAACTTGTGCGGGCTTTAAAAGAAGTCCTGCTCTTTGAGGACTAAA
GGGTGAAAGGAGAGAGTGCCT
Found at i:170603 original size:208 final size:212
Alignment explanation
Indices: 170221--170752 Score: 790
Period size: 208 Copynumber: 2.5 Consensus size: 212
170211 GGAAAAGGCA
*** * *
170221 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGGGGGCTTTGAAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT----AGAAAAGGCGTCCT
*
170286 GCTCTTTGAGGAC-AAAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCT
62 GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCT
* *
170350 CTTTGAGGACTGGAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
127 CTTTGAGGACTAGAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACT
**
170415 AAAGGGTGAAAGGAGAG-A-G
192 AAAGGGCAAAAGGAGAGAACG
*
170434 TGCCTTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-G-AAAGGCATCCTGC
1 T-CC-TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGC
170497 TCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAG-ATCCTGCTCT
64 TCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCT
* * *
170560 TTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTTTTTGAGGACTAA
129 TTGAGGACTAGAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAA
170625 AGGGCAAAAGGAGAGAACG
194 AGGGCAAAAGGAGAGAACG
*
170644 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCGTCCT
170709 GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
62 GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
170753 AAAAGGGAAA
Statistics
Matches: 291, Mismatches: 16, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
208 127 0.44
209 61 0.21
210 8 0.03
213 2 0.01
214 31 0.11
215 62 0.21
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (212 bp):
TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTC
TTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTCTTT
GAGGACTAGAAGTGCCACCAACTTGTGCGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAAG
GGCAAAAGGAGAGAACG
Found at i:170752 original size:62 final size:62
Alignment explanation
Indices: 170643--170764 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 62
170633 AGGAGAGAAC
**
170643 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAAGGT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAGGT
170704 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAG
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAG
170765 AAGGAAATGA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
61 19 0.33
62 31 0.54
63 7 0.12
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (62 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAGGT
Found at i:170803 original size:45 final size:46
Alignment explanation
Indices: 170753--170974 Score: 273
Period size: 43 Copynumber: 5.0 Consensus size: 46
170743 TGTGGGCTTT
*
170753 AAAAGG-GAAAAGAAGGAAATGAAGTGCATCCTACTCTTTGAGGAC
1 AAAAGGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC
** * *
170798 AAAAGGAGAAAAGAAAGG-AATGAAACGTGTCCTGCTCTTTGAGGAC
1 AAAAGGAGAAAAG-AAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC
* * *
170844 -AAAGGAGAAAAG--GAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
1 AAAAGGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC
* * *
170887 -TAAGGAGAAAAG--GAAAATAAAGTGCGTCCTACTCTTTGAGGAC
1 AAAAGGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC
170930 AAAAGG-GAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC
1 AAAAGGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC
170975 TAGGAGGTGC
Statistics
Matches: 156, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
42 1 0.01
43 71 0.46
44 4 0.03
45 47 0.30
46 29 0.19
47 4 0.03
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18
Consensus pattern (46 bp):
AAAAGGAGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC
Found at i:170967 original size:88 final size:89
Alignment explanation
Indices: 170753--170980 Score: 299
Period size: 88 Copynumber: 2.6 Consensus size: 89
170743 TGTGGGCTTT
* *
170753 AAAAGGGAAAAGAAGGAAATGAAGTGCATCCTACTCTTTGAGGACAAAAGGAGAAAAGAAAGGAA
1 AAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC-TAAGGAGAAAAGAAA-GAA
*
170818 TGAAACGTGTCCTGCTCTTTGAGGAC
64 TGAAACGTGTCCTACTCTTTGAGGAC
* * * *
170844 -AAAGGAGAAAAG--GAAAATAAAGTGCGTCCTGCTCTTTGAGGACTAAGGAGAAAAGGAA-AAT
1 AAAAGG-GAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACTAAGGAGAAAAGAAAGAAT
170905 -AAA-GTGCGTCCTACTCTTTGAGGAC
65 GAAACGT--GTCCTACTCTTTGAGGAC
170930 AAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACT-AGGAG
1 AAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACTAAGGAG
170981 GTGCCACCAA
Statistics
Matches: 121, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
84 2 0.02
85 3 0.02
86 26 0.21
87 10 0.08
88 42 0.35
89 27 0.22
90 5 0.04
91 6 0.05
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.18
Consensus pattern (89 bp):
AAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACTAAGGAGAAAAGAAAGAATG
AAACGTGTCCTACTCTTTGAGGAC
Found at i:171070 original size:61 final size:60
Alignment explanation
Indices: 170955--171627 Score: 871
Period size: 61 Copynumber: 11.0 Consensus size: 60
170945 GAAATGAAGT
* *
170955 GCGTCCTACTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
171016 ACGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAG
* * * *
171078 GCATCCTGCTCTTTGAGGACTAGAGGGTGCTACCAACTTGTGTGGGCTTTAAAAGGAAAAC
1 GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * * *
171139 ACGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTATAAAAAGACAAAAAA
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCT-TTAAAAG--GAAAAG
* * *
171202 ACGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
1 GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
171263 GCGTCATGCACTTTGAGGACTAAAGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
171323 GCATCCTGCTCTTTAAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--GAAAAG
* * ** * * *
171386 GCATCCTGCTTTTTGAGGACTAGGGGGTGCCACCAA-TTCGTCTGCGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTT-GTGTGGGCTTTAAAAGGAAAAG
*
171447 GCGTCCTGCTTTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
171508 GCGTCCTACTCTTTGAGGGCTAAAGGTGCCACCAACTTGTGTGAGCTTTGAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAG
* * *
171569 GCGTCCTACTCTTTGAGGACTATAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
171628 AAGGCATTAT
Statistics
Matches: 539, Mismatches: 58, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
60 159 0.29
61 218 0.40
62 32 0.06
63 87 0.16
64 43 0.08
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (60 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:171308 original size:184 final size:182
Alignment explanation
Indices: 170955--171628 Score: 897
Period size: 184 Copynumber: 3.7 Consensus size: 182
170945 GAAATGAAGT
* * *
170955 GCGTCCTACTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGACG
1 GCGTCCTACTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAACG
* * * *
171019 TCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAAGGCATC
65 TCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAA-GCGTC
* * *
171083 CTGCTCTTTGAGGACTAGAGGGTGCTACCAACTTGTGTGGGCTTTAAAAGGAAAAC
128 CTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
171139 ACGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTATAAAAAGACAAAAAAAC
1 GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG--AAAAAAAC
*
171204 GTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCA
64 GTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCC
* *
171269 TGCACTTTGAGGACTAAAGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAG
129 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
171323 GCATCCTGCTCTTTAAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGC
1 GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAA--C
* * * * * * *
171388 ATCCTGCTTTTTGAGGACTAGGGGGTGCCACCAA-TTCGTCTGCGCTTTGAAAGGAAAAGGCGTC
64 GTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTT-GTGTGGGCTTTAAAAGGAAAAAGCGTC
*
171452 CTGCTTTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
128 CTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * * **
171508 GCGTCCTACTCTTTGAGGGCTAAAGGTGCCACCAACTTGTGTGAGCTTTGAAAAGGAAAAGGCGT
1 GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAACGT
* * *
171573 CCTACTCTTTGAGGACTATA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
66 CCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
171629 AGGCATTATG
Statistics
Matches: 429, Mismatches: 52, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
182 35 0.08
183 46 0.11
184 180 0.42
185 107 0.25
186 36 0.08
187 25 0.06
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (182 bp):
GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAACGT
CCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTG
CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:178188 original size:79 final size:78
Alignment explanation
Indices: 177805--178187 Score: 387
Period size: 79 Copynumber: 4.8 Consensus size: 78
177795 ATGATAATGA
* * * * **
177805 GGTTGGAGTATCCCCTGGTTATGGAAAATCGGTATTTTAAAAATAAAATCGGGGTTGGAGTATCC
1 GGTTGGAGTAT-CCCTGATTGTAGAAAATTGGTGCTTT-AAAATAAAATCGGGGTTGGAGTATCC
*
177870 CCTTGAAAATAACAA
64 CCTTGAAAATAACAG
* * *
177885 GGTTGGAGTATCCCTGATTATAGAAAATTGGTGATTTGAAAATAAAATAGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCTGATTGTAGAAAATTGGTGCTTT-AAAATAAAATCGGGGTTGGAGTATCCC
*
177950 TTTGAAAATAACAG
65 CTTGAAAATAACAG
* **
177964 GGTTGGAGTATCCCTGATTGTAGAAAATTGATGCTTTAGAAAT-AAGGCTGGGGTTGGAGTAT-C
1 GGTTGGAGTATCCCTGATTGTAGAAAATTGGTGCTTTA-AAATAAAATC-GGGGTTGGAGTATCC
* *
178027 CTTTCGAAAATAATAG
64 CCTT-GAAAATAACAG
* * * **
178043 GGTTAGAGTATCCCTGATTGTAGAAAATCGATGCTTTAGAAAT-AAGGCTGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCTGATTGTAGAAAATTGGTGCTTTA-AAATAAAATC-GGGGTTGGAGTATCC
* * *
178107 CCGTGATAATAACGG
64 CCTTGAAAATAACAG
** * * *
178122 GGTTGGAGTATCCCCAATTGT-GAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTGAAGTATCC
1 GGTTGGAGTATCCCTGATTGTAGA-AAATTGGTGCTTT-AAAATAAAATCGGGGTTGGAGTATCC
178186 CC
64 CC
178188 GATTGTGAAA
Statistics
Matches: 263, Mismatches: 33, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
78 10 0.04
79 235 0.89
80 18 0.07
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (78 bp):
GGTTGGAGTATCCCTGATTGTAGAAAATTGGTGCTTTAAAATAAAATCGGGGTTGGAGTATCCCC
TTGAAAATAACAG
Found at i:178230 original size:47 final size:48
Alignment explanation
Indices: 178121--178234 Score: 135
Period size: 47 Copynumber: 2.3 Consensus size: 48
178111 GATAATAACG
*
178121 GGGTTGGAGTATCCCCAATTGTGAGAAATTGGTGTTTTGAAAATAAAATC
1 GGGTTGGAGTATCCCCAATTGTGAGAAA-T-GTATTTTGAAAATAAAATC
* *
178171 GGAGTTGAAGTATCCCCGATTGTGA-AAA-GTATTTT-AGAAATAAAATC
1 GG-GTTGGAGTATCCCCAATTGTGAGAAATGTATTTTGA-AAATAAAATC
178218 GAGGTTGGAGTATCCCC
1 G-GGTTGGAGTATCCCC
178235 TCGGAAATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
46 1 0.02
47 30 0.53
48 1 0.02
50 5 0.09
51 20 0.35
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (48 bp):
GGGTTGGAGTATCCCCAATTGTGAGAAATGTATTTTGAAAATAAAATC
Found at i:178355 original size:28 final size:28
Alignment explanation
Indices: 178313--178385 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
178303 GACATAAAGC
*
178313 CGGGGTTGGAGTATCCCCTAGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* * *
178341 CGGGGTTGGAATATCCCCGATGAAATAT
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
178369 CGGAGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
178386 TAATTATGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:178516 original size:51 final size:50
Alignment explanation
Indices: 178367--178541 Score: 154
Period size: 51 Copynumber: 3.4 Consensus size: 50
178357 CCGATGAAAT
** * * * *
178367 ATCGGAGTTGGAGTATCCCTAATTATGAAAAATTGGTGTTTCAAAAATAAA
1 ATCGGAGTTGGAGTATCCCCGATTAAG-AAAATTGATGTTTTAGAAATAAA
** * * *
178418 ATCGGAGTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAA
1 ATCGGAGTTGGAGTATCCCCGATT-AAGAAAATTGATGTTTTAGAAATAAA
* * * **
178469 ATTGGAGTTGAAGTATCCCCGATTAAGAAAATTTGATGTTTTGGAAATGGA
1 ATCGGAGTTGGAGTATCCCCGATTAAGAAAA-TTGATGTTTTAGAAATAAA
*
178520 ACCGG-GATTGGAGTATCCCCGA
1 ATCGGAG-TTGGAGTATCCCCGA
178542 GATGAAAAAT
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
50 5 0.05
51 92 0.94
52 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
ATCGGAGTTGGAGTATCCCCGATTAAGAAAATTGATGTTTTAGAAATAAA
Found at i:180859 original size:13 final size:13
Alignment explanation
Indices: 180841--180869 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
180831 ACAATGAGCT
180841 ATGTATCGATACA
1 ATGTATCGATACA
180854 ATGTATCGATACA
1 ATGTATCGATACA
180867 ATG
1 ATG
180870 CAAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:180862 original size:33 final size:33
Alignment explanation
Indices: 180820--180951 Score: 114
Period size: 33 Copynumber: 4.1 Consensus size: 33
180810 TACATTATAA
**
180820 AATGTATCGATACAATG-AGCTATGTATCGATAC
1 AATGTATCGATACAATGCA-AAATGTATCGATAC
180853 AATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGCAAAATGTATCGATAC
* * ** *
180886 -ATCTA--GGTA-AACCCAGAATGTATCGATAC
1 AATGTATCGATACAATGCAAAATGTATCGATAC
* * *
180915 AATGTATTGATACAGTG-AACAATGTATCGATAT
1 AATGTATCGATACAATGCAA-AATGTATCGATAC
180948 AATG
1 AATG
180952 AACAATGTAT
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
29 17 0.22
30 7 0.09
32 8 0.10
33 46 0.58
34 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:180938 original size:20 final size:20
Alignment explanation
Indices: 180913--180969 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
180903 ATGTATCGAT
* *
180913 ACAATGTATTGATACAGTGA
1 ACAATGTATCGATACAATGA
*
180933 ACAATGTATCGATATAATGA
1 ACAATGTATCGATACAATGA
180953 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
180970 ATGGTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:182741 original size:21 final size:20
Alignment explanation
Indices: 182683--182738 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
182673 AAAAAAACAG
*
182683 AATGTATCGATACATTAAAA
1 AATGTATCGATACATTGAAA
*
182703 AATGTATCGACACATTGAAA
1 AATGTATCGATACATTGAAA
182723 AATGTATCGATACATT
1 AATGTATCGATACATT
182739 TGAGTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:182749 original size:71 final size:70
Alignment explanation
Indices: 182633--182767 Score: 191
Period size: 71 Copynumber: 1.9 Consensus size: 70
182623 AATTAACTAT
* *
182633 ATGTATCGATACATTGACAAATGTACCGATACATTTAGGTAAAAAAACAGAATGTATCGATACAT
1 ATGTATCGACACATTGAAAAATGTACCGATACATTTAGGT-AAAAAACAGAATGTATCGATACAT
182698 TAAAAA
65 TAAAAA
* ** *
182704 ATGTATCGACACATTGAAAAATGTATCGATACATTT-GAGTAAAAAACATTATTTATCGATACAT
1 ATGTATCGACACATTGAAAAATGTACCGATACATTTAG-GTAAAAAACAGAATGTATCGATACAT
182768 GTACTGTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
70 22 0.39
71 35 0.61
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (70 bp):
ATGTATCGACACATTGAAAAATGTACCGATACATTTAGGTAAAAAACAGAATGTATCGATACATT
AAAAA
Found at i:185812 original size:22 final size:20
Alignment explanation
Indices: 185758--185817 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
185748 TTCGGGAAAG
*
185758 AAATTGTATCGATACATAAGT
1 AAATTGTATCGATACAT-TGT
*
185779 AAA-TCTATCGATACATTGCTT
1 AAATTGTATCGATACATTG--T
185800 AAATTGTATCGATACATT
1 AAATTGTATCGATACATT
185818 ATTTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 12 0.36
21 7 0.21
22 13 0.39
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (20 bp):
AAATTGTATCGATACATTGT
Found at i:187660 original size:12 final size:13
Alignment explanation
Indices: 187643--187671 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
187633 TTTTCTATGC
187643 TTTTTCT-AAATA
1 TTTTTCTCAAATA
187655 TTTTTCTCAAATA
1 TTTTTCTCAAATA
187668 TTTT
1 TTTT
187672 AATAAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTCTCAAATA
Found at i:193120 original size:14 final size:14
Alignment explanation
Indices: 193101--193128 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
193091 GGCAAGTCTT
193101 GCTCTCTCAATATG
1 GCTCTCTCAATATG
193115 GCTCTCTCAATATG
1 GCTCTCTCAATATG
193129 ACATCATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (14 bp):
GCTCTCTCAATATG
Found at i:195646 original size:19 final size:19
Alignment explanation
Indices: 195618--195670 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
195608 TTGTATTGAT
* *
195618 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGC
* *
195637 TCATTGTATCGAGACATGC
1 ACATTGTATCGATACATGC
195656 ACAATTGTATCGATA
1 AC-ATTGTATCGATA
195671 AATGAAACTG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:197387 original size:15 final size:15
Alignment explanation
Indices: 197364--197394 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
197354 ATCAAAGGCA
197364 ATGAAGATAATGATG
1 ATGAAGATAATGATG
*
197379 ATGATGATAATGATG
1 ATGAAGATAATGATG
197394 A
1 A
197395 AGTTGAGTCG
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:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
ATGAAGATAATGATG
Found at i:204762 original size:21 final size:19
Alignment explanation
Indices: 204715--204769 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
204705 GCAAGGTAGC
204715 TTTGTATCGATACAACACT
1 TTTGTATCGATACAACACT
* **
204734 TATGTATCGATACATTTACT
1 TTTGTATCGATACA-ACACT
204754 ATTTGTATCGATACAA
1 -TTTGTATCGATACAA
204770 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACAACACT
Found at i:205700 original size:49 final size:49
Alignment explanation
Indices: 205468--206891 Score: 1067
Period size: 49 Copynumber: 29.8 Consensus size: 49
205458 CGAAGAATGA
* * * * * *
205468 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* ** * ** * * *
205515 CAATGTGCTGAGACAAGGCCAGCGACATTGGGTTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA--AA-GATGAAGGTGC
* * * *
205567 CAATATGTTGATTCAAGGCCAACGATATCGAACTTAAAGATGAAGGTG-
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * ** *
205615 CGA-GTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
205663 CAATATGCTGATTAAAGTCCATCGATATTGGACTTAAAGATTAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
205712 TAATGTACTGATTCAAGG-CTGACGACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAG-CGATATTGGACTTAAAGAT-G--AAGGTGC
* * * * *
205764 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
205813 CAATATGCTTATTCAAGGCCTA-CGATATTGG-CCT-----T----GTGC
1 CAATATGCTGATTCAAGGCC-AGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * *
205852 CAATGTGCTAATTTAAGGCCAGCGACATTAGTCTTAAAGAT-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
205900 CAATATGTTGATTCAAGGCCAGCGATATTGGACTCAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * *
205949 CAATGTGCTGATTCAAGGTCGGCGACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
* * * * * * *
206001 CAATGTGATGATTCAAGGCCAACGACATCGGTCTTATAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * *
206050 AAATATGCTTATTCAAGGCTAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
** * * * *
206089 CAAGGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
206137 CAATATGCTGATTCAAAGCCAACGATATTAGAC-TCAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
206185 CAATGTGCTGATTCAAGGCCGGTGATATTGGACTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
* * * * *
206237 CAATGTGCTGATTCAAAGCCAACGACATTGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
206286 CAATATGCTTATTCAAGGCCAGCAATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * *
206325 CAATGTGCAGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
206373 TAATATGCTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGGTAAAGGTTC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
* * * * *
206424 CAATATGCTGATTTAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * *
206473 CAATATGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
206522 CAATATGCTTATTCAAGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
*** * *
206561 CACGGTGCTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
206609 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
* * * * *
206661 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
206710 CAATATGCTGATTCAAGGCCAGCAATATTGGACTT-AAGATGGTAAATGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
* *
206761 CAATATGCTAATTCAAGGCCAGCGATGTTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
206804 CAATAGGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
206853 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
206892 GTGCCACGGA
Statistics
Matches: 1092, Mismatches: 206, Indels: 156
0.75 0.14 0.11
Matches are distributed among these distances:
38 1 0.00
39 120 0.11
40 4 0.00
43 40 0.04
44 1 0.00
45 1 0.00
47 75 0.07
48 182 0.17
49 385 0.35
50 9 0.01
51 76 0.07
52 197 0.18
53 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
Found at i:205948 original size:237 final size:238
Alignment explanation
Indices: 205618--206891 Score: 1678
Period size: 236 Copynumber: 5.4 Consensus size: 238
205608 GAAGGTGCGA
* * *
205618 GTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATAAAGGTGCCAATATGCTGATTAAAGTCC
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
* * * * * *
205683 ATCGATATTGGACTTAAAGATTAAGATGCTAATGTACTGATTCAAGGCTGACGACATTGGACTTA
66 AGCGATATTGGACTCAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACATTGGACTTA
205748 AAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
131 AAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
*
205813 CAATATGCTTATTCAAGGCCTA-CGATATTGGCCTTGTGCCAAT
196 CAATATGCTTATTCAAGGCC-AGCGATATTGGGCTTGTGCCAAT
* * * *
205856 GTGCTAATTTAAGGCCAGCGACATTAGTCTTAAAGAT-AAGGTGCCAATATGTTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
* *
205920 AGCGATATTGGACTCAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCGGCGACATTGGACTTA
66 AGCGATATTGGACTCAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACATTGGACTTA
* *
205985 AAGATGGTTAAGGTGCCAATGTGATGATTCAAGGCCAACGACATCGGTCTTATAGATGAAGGTGC
131 AAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
* * *
206050 AAATATGCTTATTCAAGGCTAGCGATATTGGGCTTGTGCCAAG
196 CAATATGCTTATTCAAGGCCAGCGATATTGGGCTTGTGCCAAT
* * *
206093 GTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAAGCC
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
* * ** *
206157 AACGATATTAGACTC-AAGATGAAGATGCCAATGTGCTGATTCAAGGCCGGTGATATTGGACTTA
66 AGCGATATTGGACTCAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACATTGGACTTA
* *
206221 AAGATGGTTAAGGTGCCAATGTGCTGATTCAAAGCCAACGACATTGGTCTTAAAGATGAAGGTGC
131 AAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
*
206286 CAATATGCTTATTCAAGGCCAGCAATATTGGGCTTGTGCCAAT
196 CAATATGCTTATTCAAGGCCAGCGATATTGGGCTTGTGCCAAT
* * * *
206329 GTGCAGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCTAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
* * * * * * *
206393 AGCGATATTGGACTC-AAGATGGTAAAGGTTCCAATATGCTGATTTAAGGCCAACGACATCGGTC
66 AGCGATATTGGACTCAAAGAT-G--AAGATGCCAATGTGCTGATTCAAGGCCGACGACATTGGAC
*
206457 TTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
128 TTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
**
206519 TGCCAATATGCTTATTCAAGGCCAGCGATATTGGGCTTGTGCCACG
193 TGCCAATATGCTTATTCAAGGCCAGCGATATTGGGCTTGTGCCAAT
* * * * * *
206565 GTGCTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
* * * * * *
206629 AGCGATATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTC
66 AGCGATATTGGACTCAAAGAT-G--AAGATGCCAATGTGCTGATTCAAGGCCGACGACATTGGAC
* * * * * *
206694 TTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT-AAGATGGTAA
128 TTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGAT-G--A
* * * *
206755 ATGTGCCAATATGCTAATTCAAGGCCAGCGATGTTGGACTTAAAGGTGCCAAT
190 AGGTGCCAATATGCTTATTCAAGGCCAGCGATATTGGGCTT----GTGCCAAT
*
206808 AG-GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGC
1 -GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGC
*
206872 CAGCGATATTGGACTTAAAG
65 CAGCGATATTGGACTCAAAG
206892 GTGCCACGGA
Statistics
Matches: 925, Mismatches: 95, Indels: 26
0.88 0.09 0.02
Matches are distributed among these distances:
235 5 0.01
236 385 0.42
237 345 0.37
238 34 0.04
239 76 0.08
243 31 0.03
244 49 0.05
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (238 bp):
GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTCAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACATTGGACTTA
AAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
CAATATGCTTATTCAAGGCCAGCGATATTGGGCTTGTGCCAAT
Found at i:206327 original size:188 final size:187
Alignment explanation
Indices: 206133--206493 Score: 508
Period size: 187 Copynumber: 1.9 Consensus size: 187
206123 TAAAGACAAG
* * * * *
206133 GTGCCAATATGCTGATTCAAAGCCAACGATATTAGAC-TCAAGATGAAGATGCCAATGTGCTGAT
1 GTGCCAATATGCAGATTCAAAGCCAACGACATTAGACTTAAAGA-CAAGATGCCAATATGCTGAT
* * * *
206197 TCAAGGCCGGTGATATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAAGCCAACGA
65 TCAAGGCCAGCGATATTGGAC-TAAAGATGGTAAAGGTGCCAATATGCTGATTCAAAGCCAACGA
* *
206262 CATTGGTCTTAAAGATGAAGGTGCCAATATGCTTATTCAAGGCCAGCAATATTGGGCTT
129 CATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
* * * * * *
206321 GTGCCAATGTGCAGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCTAATATGCTGATT
1 GTGCCAATATGCAGATTCAAAGCCAACGACATTAGACTTAAAGACAAGATGCCAATATGCTGATT
* * * *
206386 CAAGGCCAGCGATATTGGACTCAAGATGGTAAAGGTTCCAATATGCTGATTTAAGGCCAACGACA
66 CAAGGCCAGCGATATTGGACTAAAGATGGTAAAGGTGCCAATATGCTGATTCAAAGCCAACGACA
206451 TCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
131 TCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
206494 ACGACATCGG
Statistics
Matches: 151, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
187 80 0.53
188 66 0.44
189 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (187 bp):
GTGCCAATATGCAGATTCAAAGCCAACGACATTAGACTTAAAGACAAGATGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTAAAGATGGTAAAGGTGCCAATATGCTGATTCAAAGCCAACGACA
TCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
Found at i:206624 original size:87 final size:88
Alignment explanation
Indices: 206478--206740 Score: 267
Period size: 87 Copynumber: 2.9 Consensus size: 88
206468 GGTGCCAATA
* * *
206478 TGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTTATTCAAGGCCA
1 TGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
206543 GCGATATTGGGCTTGTGCCACGG
66 GCGATATTGGGCTTGTGCCACGG
* * * * *
206566 TGCTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
* * **
206630 GCGATATTGGACTTAAAAATGGTTAAGGTGCCAATG
66 GCGATATTGGGC-T-----T-G-T---G-CC-ACGG
* *
206666 TGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
*
206731 GCAATATTGG
66 GCGATATTGG
206741 ACTTAAGATG
Statistics
Matches: 141, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
87 43 0.30
88 25 0.18
93 1 0.01
94 1 0.01
95 1 0.01
98 1 0.01
99 1 0.01
100 26 0.18
101 42 0.30
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (88 bp):
TGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
GCGATATTGGGCTTGTGCCACGG
Found at i:206660 original size:188 final size:187
Alignment explanation
Indices: 206378--206740 Score: 568
Period size: 188 Copynumber: 1.9 Consensus size: 187
206368 GGTGCTAATA
* * *
206378 TGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGTAAAGGTTCCAATATGCTGATTTAAGGC
1 TGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGG-AAAGATGCCAATATGCTGATTCAAGGC
* *
206443 CAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATCGGTCTT
65 CAACGACATCGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATCGGTCTT
* *
206508 AAAGATGAAGGTGCCAATATGCTTATTCAAGGCCAGCGATATTGGGCTTGTGCCACGG
130 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTGTGCCACGG
*
206566 TGCTGATTCAAGGCCAGCGATATTGGACTCAAGAT-G-AAGATGCCAATGTGCTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGAAAGATGCCAATATGCTGATTCAAGGCC
* * * *
206629 AGCGATATTGGACTTAAAAATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTC
66 AACGACATCGGACTTAAAAAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAACGACATCGGTC
206694 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
128 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
206741 ACTTAAGATG
Statistics
Matches: 160, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
185 39 0.24
186 1 0.01
187 1 0.01
188 119 0.74
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (187 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGAAAGATGCCAATATGCTGATTCAAGGCC
AACGACATCGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATCGGTCTTA
AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTGTGCCACGG
Found at i:206761 original size:100 final size:99
Alignment explanation
Indices: 206566--206891 Score: 407
Period size: 100 Copynumber: 3.3 Consensus size: 99
206556 TGTGCCACGG
* * *
206566 TGCTGATTCAAGGCCAGCGATATTGGAC-TCAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
* * *
206630 GCGATATTGGACTTAAAAATGGTTAAGGTGCCAATG
66 GCGATATTGGACTT--AAATGGTAAATGTGCCAATA
* * * *
206666 TGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
*
206731 GCAATATTGGACTTAAGATGGTAAATGTGCCAATA
66 GCGATATTGGACTTAA-ATGGTAAATGTGCCAATA
* * *
206766 TGCTAATTCAAGGCCAGCGATGTTGGACTT----A--AAGGTGCCAATAGGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
* * * *
206825 GCGACATTGGTCTTAAA-GATAAAAGTGCCAATA
66 GCGATATTGGACTTAAATGGTAAATGTGCCAATA
206858 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
206892 GTGCCACGGA
Statistics
Matches: 195, Mismatches: 25, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
92 42 0.22
93 1 0.01
94 40 0.21
96 1 0.01
99 2 0.01
100 63 0.32
101 46 0.24
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (99 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
GCGATATTGGACTTAAATGGTAAATGTGCCAATA
Found at i:206818 original size:43 final size:43
Alignment explanation
Indices: 206752--206897 Score: 184
Period size: 43 Copynumber: 3.3 Consensus size: 43
206742 CTTAAGATGG
* * *
206752 TAAATGTGCCAATATGCTAATTCAAGGCCAGCGATGTTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * *
206795 TAAAGGTGCCAATAGGCTGATTCAAGGCCAGCGACATTGGTCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
206838 TAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAG------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
206887 TAAAGGTGCCA
1 TAAAGGTGCCA
206898 CGGACTTGTG
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
43 48 0.55
49 40 0.45
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
Found at i:207031 original size:33 final size:33
Alignment explanation
Indices: 206888--207244 Score: 329
Period size: 33 Copynumber: 10.9 Consensus size: 33
206878 TATTGGACTT
* *
206888 AAAGGTGCCACGGACTTGTGGACTTACAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
206920 AAAGCGATGCCACGGAGGTATGGGCTTAAAAGGGAA
1 AAAG-G-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * * *
206956 AAAGGTGCAACGAAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
206988 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
207021 CAAGGTGCCACTGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* **
207054 AAAGATGCCACGGAGTTACGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
207084 ---GGTGCCATGGAGTTATGGACTTGAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
207114 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* * ** **
207149 AAATGTGCCACAGAGTCATGGACTT--TGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
207180 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
207214 AATGATGCCACGGAGTTGTAGACTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG
207245 GTGCCACAGA
Statistics
Matches: 260, Mismatches: 49, Indels: 31
0.76 0.14 0.09
Matches are distributed among these distances:
27 22 0.08
28 1 0.00
31 6 0.02
32 51 0.20
33 86 0.33
34 75 0.29
35 12 0.05
36 7 0.03
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:207090 original size:27 final size:27
Alignment explanation
Indices: 207059--207111 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
207049 AGGAAAAAGA
207059 TGCCACGGAGTTACGGACTTAAAAGGG
1 TGCCACGGAGTTACGGACTTAAAAGGG
* * *
207086 TGCCATGGAGTTATGGACTTGAAAGG
1 TGCCACGGAGTTACGGACTTAAAAGG
207112 AAAAAGAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTACGGACTTAAAAGGG
Found at i:207103 original size:60 final size:62
Alignment explanation
Indices: 206974--207131 Score: 171
Period size: 60 Copynumber: 2.5 Consensus size: 62
206964 AACGAAGTCG
* * **
206974 TGGACTTAAAAAG-AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACTGAGTT
1 TGGACTTAAAAGGAAAAAGATGCCACGGAGTTACGGACTTAAAAGG----AGGTGCCACTGAGTT
*
207038 G
62 A
207039 TGGACTTAAAAGGAAAAAGATGCCACGGAGTTACGGACTTAAAA-G-GGTGCCA-TGGAGTTA
1 TGGACTTAAAAGGAAAAAGATGCCACGGAGTTACGGACTTAAAAGGAGGTGCCACT-GAGTTA
* *
207099 TGGACTTGAAAGGAAAAAGAGTGCCACAGAGTT
1 TGGACTTAAAAGGAAAAAGA-TGCCACGGAGTT
207132 GTGGGCTTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
59 1 0.01
60 31 0.37
61 11 0.13
65 13 0.16
66 27 0.33
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (62 bp):
TGGACTTAAAAGGAAAAAGATGCCACGGAGTTACGGACTTAAAAGGAGGTGCCACTGAGTTA
Found at i:207139 original size:193 final size:191
Alignment explanation
Indices: 206882--207244 Score: 450
Period size: 193 Copynumber: 1.9 Consensus size: 191
206872 CAGCGATATT
* * *
206882 GGACTTAAAGGTGCCACGGACTTGTGGACTTACAAGAAAAAGCGATGCCACGGAGGTATGGGC-T
1 GGACTTAAAGGTGCCACGGACTTATGGACTTACAAGAAAAAGAGATGCCACAGAGGTATGGGCTT
* *
206946 TAAAAGGGAAAAAGGTGCAAC-GAAGTCGTGGACTTAAAAAGAAAAG-GTGCCACGGAGTTGTGG
66 TAAAA-AGAAAAAGGTGCAACAG-AGTCATGGACTTAAAAA-AAAAGAGTGCCACGGAGTTGTGG
* * *
207009 ACTTAAAAGGAACAA-GGTGCCACTGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTAC
128 ACTTAAAAGGAA-AATGATGCCACGGAGTTGTAGACTTAAAAGGAAAAAGATGCCACGGAGTTAC
* * * *
207073 GGACTTAAAAGGGTGCCATGGAGTTATGGACTTGA-AAGGAAAAAGAG-TGCCACAGAGTTGTGG
1 GGACTT-AAA-GGTGCCACGGACTTATGGACTT-ACAA-GAAAAAGAGATGCCACAGAGGTATGG
* * ****
207136 GCTTTAAAAAGAAAAATGTGCCACAGAGTCATGGACTTTGGGAAAAAGAGTGCCACGGAGTTGTG
62 GCTTTAAAAAGAAAAAGGTGCAACAGAGTCATGGACTTAAAAAAAAAGAGTGCCACGGAGTTGTG
207201 GACTTAAAAGGAAAATGATGCCACGGAGTTGTAGACTTAAAAGG
127 GACTTAAAAGGAAAATGATGCCACGGAGTTGTAGACTTAAAAGG
207245 GTGCCACAGA
Statistics
Matches: 146, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
191 6 0.04
192 10 0.07
193 114 0.78
194 16 0.11
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (191 bp):
GGACTTAAAGGTGCCACGGACTTATGGACTTACAAGAAAAAGAGATGCCACAGAGGTATGGGCTT
TAAAAAGAAAAAGGTGCAACAGAGTCATGGACTTAAAAAAAAAGAGTGCCACGGAGTTGTGGACT
TAAAAGGAAAATGATGCCACGGAGTTGTAGACTTAAAAGGAAAAAGATGCCACGGAGTTAC
Found at i:207191 original size:127 final size:124
Alignment explanation
Indices: 206974--207211 Score: 298
Period size: 127 Copynumber: 1.9 Consensus size: 124
206964 AACGAAGTCG
* * * * **
206974 TGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACTGAGTTG
1 TGGACTTAAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTCA
207039 TGGACTTAAAAGGAAAAAGATGCCACGGAGTTACGGACTTAAAAGGGTGCCATGGAGTTA
66 TGGACTT-AAAGGAAAAAGATGCCACGGAGTTACGGACTTAAAAGGGTGCCATGGAGTTA
* * * *
207099 TGGACTTGAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACAGAG
1 TGGACTTAAAAAG-AAAAG-GTGCCACAGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACAGAG
** **
207164 TCATGGACTT-TGGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG
63 TCATGGACTTAAAGGAAAAAGA-TGCCACGGAGTTACGGACTTAAAAGG
207212 AAAATGATGC
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
125 11 0.12
126 14 0.15
127 41 0.43
128 29 0.31
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (124 bp):
TGGACTTAAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTCA
TGGACTTAAAGGAAAAAGATGCCACGGAGTTACGGACTTAAAAGGGTGCCATGGAGTTA
Found at i:207292 original size:33 final size:31
Alignment explanation
Indices: 207112--207969 Score: 530
Period size: 33 Copynumber: 27.3 Consensus size: 31
207102 ACTTGAAAGG
* * *
207112 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTT-GA
* * ** *
207144 AAGAAAAATGTGCCACAGAGTCATGGACTTTGGG
1 AA-AAAGA-GTGCCACTGAGTTGTGGACTTT-GA
* **
207178 AAAAAGAGTGCCACGGAGTTGTGGACTTAAA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
* *
207209 AGGAAAATGA-TGCCACGGAGTTGTAGAC-TT--
1 A--AAAA-GAGTGCCACTGAGTTGTGGACTTTGA
* *
207239 -AAAAGGGTGCCACAGAGTTGTGGACTTTGGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTT-GA
* *
207270 AAAAATAGTGCCACTGGAGTTGTGGACTTTGG
1 AAAAAGAGTGCCACT-GAGTTGTGGACTTTGA
* * *
207302 GAAGAGA-TGCCACTGAGTGGTGGACTTTGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
* * * * *
207332 GAAGAGATTGCCACTAAGTCGTGGACTTTAAGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTT--GA
* *
207365 AAAAAGA-TGGCACTGAGTTGTTGACTTT-A
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
*
207394 AGGAAAGAGATGCCACTGAGTTGTGGACTTTGA
1 A-AAAAGAG-TGCCACTGAGTTGTGGACTTTGA
* * *
207427 GAAGAGA-TGCCACTGAGTCGTGGACTTTGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
* ** *
207457 AGAAAAAAGATGCCACTGAGTCATGGACTTGGA
1 A-AAAAGAG-TGCCACTGAGTTGTGGACTTTGA
* * *
207490 AGAAAAG-GATGCCACTAAGTCGTGGACTTAGA
1 A-AAAAGAG-TGCCACTGAGTTGTGGACTTTGA
* *
207522 AAAGAGA-TGCCATTGAGTTGTGGACTTTGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
* * *
207552 AGAAAAAAGATGCCACTGAGTTATGCACTTTAAAGA
1 A-AAAAGAG-TGCCACTGAGTTGTGGACTTT---GA
* * *
207588 AAAAAGA-TGCCACTGAGTCGTGGAATTCGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
* *
207618 AAAGAGA-TGCCACTGAGTTATGGACTTTGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
*
207648 AGAAAAGA-TGCCACTGAGTCGTGGACTTTGA
1 A-AAAAGAGTGCCACTGAGTTGTGGACTTTGA
* * * * *
207679 AGAAAAAAGATGCCACTAAGTCGCGGACTTCGA
1 A-AAAAGAG-TGCCACTGAGTTGTGGACTTTGA
* * * *
207712 AGAAAAAAGATGCCATTGAGTCGTGGACTTCGA
1 A-AAAAGAG-TGCCACTGAGTTGTGGACTTTGA
* *
207745 AGAAAA-AGATGCCACTGAGTCGTGGACTTCGA
1 A-AAAAGAG-TGCCACTGAGTTGTGGACTTTGA
* * **
207777 AAAGAGA-TGCCACTAAGTCATGGACTTTGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
** *
207807 AGAAAAGA-TGCCACTGAGTCATGGACTTTGG
1 A-AAAAGAGTGCCACTGAGTTGTGGACTTTGA
* * * **
207838 GACAAGA-TGCCACTGAATCATGGACTTTGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
* * * * * *
207868 GAAGAGATTGCCACTAAGTCGTGGACTTCGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
* *
207899 AGAAAAAAGATGCCACTGAGTCGTGGACTTTGA
1 A-AAAAGAG-TGCCACTGAGTTGTGGACTTTGA
* * * *
207932 GAAGAGA-TGCCACTAAGTCGTGGACTTTGA
1 AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
*
207962 GAAAAGAG
1 AAAAAGAG
207970 ATTTGAAGAA
Statistics
Matches: 676, Mismatches: 112, Indels: 77
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.00
27 20 0.03
28 2 0.00
29 2 0.00
30 176 0.26
31 120 0.18
32 135 0.20
33 189 0.28
34 23 0.03
35 5 0.01
36 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.22
Consensus pattern (31 bp):
AAAAAGAGTGCCACTGAGTTGTGGACTTTGA
Found at i:207298 original size:60 final size:59
Alignment explanation
Indices: 207113--207265 Score: 155
Period size: 60 Copynumber: 2.5 Consensus size: 59
207103 CTTGAAAGGA
* * ** *
207113 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAATG-TGCCACAGAGTCATGGACTTT
1 AAAAGAGTGCCACAGAGTTGTGGAC-TT-AAAAG-AAAATGATGCCACGGAGTTGTAGAC-TT
*
207175 GGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAATGATGCCACGGAGTTGTAGACTT
1 ----AAAAGAGTGCCACAGAGTTGTGGACTTAAAA-GAAAATGATGCCACGGAGTTGTAGACTT
*
207239 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGAGTGCCACAGAGTTGTGGACTT
207266 TGGAAAAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
60 25 0.32
64 12 0.16
65 17 0.22
66 23 0.30
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (59 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGAAAATGATGCCACGGAGTTGTAGACTT
Found at i:207327 original size:30 final size:30
Alignment explanation
Indices: 207146--207968 Score: 648
Period size: 30 Copynumber: 26.3 Consensus size: 30
207136 GCTTTAAAAA
* * *
207146 GAAAAATG-TGCCACAGAGTCATGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
* * * *
207175 GGGAAAAAGAGTGCCACGGAGTTGTGGACTTA
1 -GAAAAAAGA-TGCCACTGAGTCGTGGACTTT
* * * *
207207 AAAGGAAAATGATGCCACGGAGTTGTAGAC-TT
1 GAA--AAAA-GATGCCACTGAGTCGTGGACTTT
* * * *
207239 --AAAAGGGTGCCACAGAGTTGTGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
* *
207267 GGAAAAAATAGTGCCACTGGAGTTGTGGACTTT
1 -GAAAAAAGA-TGCCACT-GAGTCGTGGACTTT
** * *
207300 GGGAAGAGATGCCACTGAGTGGTGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
* * *
207330 GAGAAGAGATTGCCACTAAGTCGTGGACTTT
1 GAAAAAAGA-TGCCACTGAGTCGTGGACTTT
* * *
207361 AAGAAAAAAGATGGCACTGAGTTGTTGACTTT
1 --GAAAAAAGATGCCACTGAGTCGTGGACTTT
*
207393 -AAGGAAAGAGATGCCACTGAGTTGTGGACTTT
1 GAA--AAA-AGATGCCACTGAGTCGTGGACTTT
* *
207425 GAGAAGAGATGCCACTGAGTCGTGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
* *
207455 GAAGAAAAAAGATGCCACTGAGTCATGGACTTG
1 ---GAAAAAAGATGCCACTGAGTCGTGGACTTT
* *
207488 GAAGAAAAGGATGCCACTAAGTCGTGGACTTA
1 GAA-AAAA-GATGCCACTGAGTCGTGGACTTT
* * *
207520 GAAAAGAGATGCCATTGAGTTGTGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
** *
207550 GAAGAAAAAAGATGCCACTGAGTTATGCACTTT
1 ---GAAAAAAGATGCCACTGAGTCGTGGACTTT
* *
207583 AAAGAAAAAAGATGCCACTGAGTCGTGGAATTC
1 ---GAAAAAAGATGCCACTGAGTCGTGGACTTT
* **
207616 GAAAAGAGATGCCACTGAGTTATGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
207646 GAAGAAAAGATGCCACTGAGTCGTGGACTTT
1 GAA-AAAAGATGCCACTGAGTCGTGGACTTT
* * *
207677 GAAGAAAAAAGATGCCACTAAGTCGCGGACTTCGAA
1 ---GAAAAAAGATGCCACTGAGTCGTGGACTT---T
* *
207713 GAAAAAAGATGCCATTGAGTCGTGGACTTC
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
*
207743 GAAGAAAAAGATGCCACTGAGTCGTGGACTTC
1 G-A-AAAAAGATGCCACTGAGTCGTGGACTTT
* * *
207775 GAAAAGAGATGCCACTAAGTCATGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
*
207805 GAAGAAAAGATGCCACTGAGTCATGGACTTT
1 GAA-AAAAGATGCCACTGAGTCGTGGACTTT
** * * *
207836 GGGACAAGATGCCACTGAATCATGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
* * * *
207866 GAGAAGAGATTGCCACTAAGTCGTGGACTTCGAA
1 GAAAAAAGA-TGCCACTGAGTCGTGGACTT---T
207900 GAAAAAAGATGCCACTGAGTCGTGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
* * *
207930 GAGAAGAGATGCCACTAAGTCGTGGACTTT
1 GAAAAAAGATGCCACTGAGTCGTGGACTTT
*
207960 GAGAAAAGA
1 GAAAAAAGA
207969 GATTTGAAGA
Statistics
Matches: 653, Mismatches: 100, Indels: 80
0.78 0.12 0.10
Matches are distributed among these distances:
27 17 0.03
28 5 0.01
29 2 0.00
30 195 0.30
31 112 0.17
32 119 0.18
33 191 0.29
34 12 0.02
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.22
Consensus pattern (30 bp):
GAAAAAAGATGCCACTGAGTCGTGGACTTT
Found at i:207420 original size:95 final size:94
Alignment explanation
Indices: 207154--207971 Score: 686
Period size: 95 Copynumber: 8.7 Consensus size: 94
207144 AAGAAAAATG
* * * * * * *
207154 TGCCACAGAGTCATGGACTTT-GGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA-T
1 TGCCACTGAGTCGTGGACTTTAAGAAAAAAGA-TGCCACTGAGTTGTGGACTT-TAA-GAAAAGA
* * * * *
207217 GATGCCACGGAGTTGTAGAC-TT-AAAAG-GG
63 GATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * **
207246 TGCCACAGAGTTGTGGACTTT-GGAAAAAATAGTGCCACTGGAGTTGTGGACTTT--GGGAAGAG
1 TGCCACTGAGTCGTGGACTTTAAGAAAAAAGA-TGCCACT-GAGTTGTGGACTTTAAGAAAAGAG
*
207308 ATGCCACTGAGTGGTGGACTTTGAGAAGAGA
64 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * *
207339 TTGCCACTAAGTCGTGGACTTTAAGAAAAAAGATGGCACTGAGTTGTTGACTTTAAGGAAAGAGA
1 -TGCCACTGAGTCGTGGACTTTAAGAAAAAAGATGCCACTGAGTTGTGGACTTTAAGAAAAGAGA
*
207404 TGCCACTGAGTTGTGGACTTTGAGAAGAGA
65 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
** *
207434 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAG-G
1 TGCCACTGAGTCGTGGACTTT-AAGAAAAAAGATGCCACTGAGTTGTGGACTT-TAAGAAAAGAG
* * *
207498 ATGCCACTAAGTCGTGGACTTAGAAAAGAGA
64 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * *
207529 TGCCATTGAGTTGTGGACTTTGAAGAAAAAAGATGCCACTGAGTTATGCACTTTAAAGAAAAAAG
1 TGCCACTGAGTCGTGGACTTT-AAGAAAAAAGATGCCACTGAGTTGTGGACTTT-AAGAAAAGAG
* * *
207594 ATGCCACTGAGTCGTGGAATTCGAAAAGAGA
64 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
** * *
207625 TGCCACTGAGTTATGGACTTT--GAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAG
1 TGCCACTGAGTCGTGGACTTTAAGAA-AAAAGATGCCACTGAGTTGTGGACTTT-AAGAAAAGAG
* * * *
207688 ATGCCACTAAGTCGCGGACTTCGAAGAAAAAAGA
64 ATGCCACTGAGTCGTGGACTTTG-AG--AAGAGA
* * * *
207722 TGCCATTGAGTCGTGGACTTCGAAG-AAAAAGATGCCACTGAGTCGTGGAC-TT-CGAAAAGAGA
1 TGCCACTGAGTCGTGGACTT-TAAGAAAAAAGATGCCACTGAGTTGTGGACTTTAAGAAAAGAGA
* * *
207784 TGCCACTAAGTCATGGACTTTGAAGAAAAGA
65 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* ** * * ** *
207815 TGCCACTGAGTCATGGACTTT--GGGACAAGATGCCACTGAATCATGGACTTT--GAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAGAAAAAAGATGCCACTGAGTTGTGGACTTTAAGAAAAGAGA-
* * *
207876 TGCCACTAAGTCGTGGACTTCGAAGAAAAAAGA
65 TGCCACTGAGTCGTGGACTTTG-AG--AAGAGA
* * * * *
207909 TGCCACTGAGTCGTGGACTTT--GAGAAGAGATGCCACTAAGTCGTGGACTTTGAGAAAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAGAAAAAAGATGCCACTGAGTTGTGGACTTTAAGAAAAGAGAT
207972 TTGAAGAATT
Statistics
Matches: 618, Mismatches: 81, Indels: 51
0.82 0.11 0.07
Matches are distributed among these distances:
89 3 0.00
90 18 0.03
91 31 0.05
92 63 0.10
93 54 0.09
94 148 0.24
95 188 0.30
96 63 0.10
97 24 0.04
98 24 0.04
99 1 0.00
100 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (94 bp):
TGCCACTGAGTCGTGGACTTTAAGAAAAAAGATGCCACTGAGTTGTGGACTTTAAGAAAAGAGAT
GCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:209230 original size:13 final size:11
Alignment explanation
Indices: 209214--209254 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
209204 CTTTGCACTC
*
209214 TTTTTTTGTGT
1 TTTTTTTTTGT
*
209225 GTTTTTTTTGT
1 TTTTTTTTTGT
209236 TTTTGTTTTTGT
1 TTTT-TTTTTGT
209248 TTTTTTT
1 TTTTTTT
209255 AAGGGAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:219473 original size:19 final size:20
Alignment explanation
Indices: 219449--219502 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
219439 CATTGATACC
**
219449 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGCACAA
*
219468 TTGTATTGATACATGCACAA
1 TTGTATCGATACATGCACAA
219488 TTGTATCGATACATG
1 TTGTATCGATACATG
219503 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:219570 original size:13 final size:13
Alignment explanation
Indices: 219552--219576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
219542 CATGACACAT
219552 TGTATCGATACAA
1 TGTATCGATACAA
219565 TGTATCGATACA
1 TGTATCGATACA
219577 TAACGAATTG
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:219574 original size:33 final size:33
Alignment explanation
Indices: 219532--219596 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
219522 TACCACTGTT
*
219532 TGTATCGATACATGAC-ACATTGTATCGATACAA
1 TGTATCGATACATAACGA-ATTGTATCGATACAA
219565 TGTATCGATACATAACGAATTGTATCGATACA
1 TGTATCGATACATAACGAATTGTATCGATACA
219597 TAATCCCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATAACGAATTGTATCGATACAA
Found at i:223450 original size:13 final size:13
Alignment explanation
Indices: 223432--223456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
223422 CATTATGCTT
223432 TGTATCGATACAC
1 TGTATCGATACAC
223445 TGTATCGATACA
1 TGTATCGATACA
223457 TAAGATTGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:223526 original size:13 final size:13
Alignment explanation
Indices: 223508--223548 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
223498 CATGGGACAA
*
223508 TGTATCTATACAT
1 TGTATCGATACAT
223521 TGTATCGATACAT
1 TGTATCGATACAT
223534 TGTATCGATACAT
1 TGTATCGATACAT
223547 TG
1 TG
223549 CTTGTAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:224477 original size:13 final size:13
Alignment explanation
Indices: 224459--224484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
224449 TACACAAAGT
224459 ATGTATCGATACA
1 ATGTATCGATACA
224472 ATGTATCGATACA
1 ATGTATCGATACA
224485 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:224482 original size:32 final size:33
Alignment explanation
Indices: 224441--224504 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
224431 TAGCCAAACT
**
224441 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
224473 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
224505 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:226887 original size:20 final size:20
Alignment explanation
Indices: 226858--226913 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
226848 GTTGGGCACA
* *
226858 ATGTACCGATACATTTTACT
1 ATGTATCGATACATTTTACC
* * *
226878 ATGTATCGATACAATGTCCC
1 ATGTATCGATACATTTTACC
226898 ATGTATCGATACATTT
1 ATGTATCGATACATTT
226914 CACTTAGGGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTTACC
Found at i:226982 original size:19 final size:19
Alignment explanation
Indices: 226940--226994 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
226930 TGCCAATTTA
*
226940 ATGTATCAATACAATTGAGT
1 ATGTATCAATACAA-TGAGC
226960 ATGTATCAATACAATGAGC
1 ATGTATCAATACAATGAGC
*
226979 ATGTATCGATACAATG
1 ATGTATCAATACAATG
226995 CATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (19 bp):
ATGTATCAATACAATGAGC
Found at i:231954 original size:12 final size:12
Alignment explanation
Indices: 231937--231969 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
231927 TGTTTGAAAA
231937 AAAAATGCTTCT
1 AAAAATGCTTCT
*
231949 AAAAATGCTTTT
1 AAAAATGCTTCT
231961 AAAAATGCT
1 AAAAATGCT
231970 GAGATAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (12 bp):
AAAAATGCTTCT
Found at i:232168 original size:19 final size:19
Alignment explanation
Indices: 232144--232211 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
232134 AATTCAACAA
232144 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
232163 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
232178 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
232195 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
232212 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:232183 original size:13 final size:13
Alignment explanation
Indices: 232165--232189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
232155 ACATAAGTTT
232165 TGTATCGATACAA
1 TGTATCGATACAA
232178 TGTATCGATACA
1 TGTATCGATACA
232190 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:232187 original size:32 final size:32
Alignment explanation
Indices: 232146--232208 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
232136 TTCAACAATT
*
232146 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
232178 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
232209 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:232288 original size:33 final size:33
Alignment explanation
Indices: 232231--232297 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
232221 GCCAAGGAAA
***
232231 TGTATCGATACATTTTTCTGTGTATTC-ATACAT
1 TGTATCGATACATGGATCTGTGTA-TCGATACAT
*
232264 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
232297 T
1 T
232298 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 2 0.07
33 27 0.93
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:234778 original size:27 final size:28
Alignment explanation
Indices: 234744--234817 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
234734 TTTCTTCACA
234744 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
234771 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
234799 CGAGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
234818 TGACTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:234868 original size:51 final size:51
Alignment explanation
Indices: 234802--235025 Score: 268
Period size: 52 Copynumber: 4.3 Consensus size: 51
234792 TTATTTCCGA
* * * * *
234802 GGGGATACTCCAACCCTGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
* *
234853 GGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTT-CATAATC
* * * *
234905 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATC
* * *
234957 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC--AAAACACTAATTT-TTCATAATC
*
235011 GGGGATATTCCAACC
1 GGGGATACTCCAACC
235026 TCGTTAATCA
Statistics
Matches: 148, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
51 38 0.26
52 78 0.53
54 30 0.20
55 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
Found at i:235102 original size:264 final size:264
Alignment explanation
Indices: 234631--235131 Score: 826
Period size: 264 Copynumber: 1.9 Consensus size: 264
234621 TTCTCAATTC
* * * *
234631 TCCATAATCGAGGATATTTCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCATAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
234696 TACTCCAACTCCGATTTTATTTCCAAAAAAAATACCAATTTCTTCACAATCGGGGATACTCCAAC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
*
234761 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGACTTTA
130 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCAGACTTTA
* * *
234826 TTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTA
195 TTCCCAAAATATTGATTTCTCATAATCGGAGATACTCCAACCCCGATTTTATTGCTAAAACACTA
234891 ATTTT
260 ATTTT
* *
234896 TCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGG
1 TCCATAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
*
234961 ATACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGGGGATATTCCAAC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
*
235025 CTCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAG-CTTT
130 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCAGACTTT
* *
235089 ATTCCCAAAATATTGATTTCTCATAATTGGAGATACTCTAACC
194 ATTCCCAAAATATTGATTTCTCATAATCGGAGATACTCCAACC
235132 TCGTTATTTT
Statistics
Matches: 219, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
264 132 0.60
265 51 0.23
266 36 0.16
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (264 bp):
TCCATAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCAGACTTTAT
TCCCAAAATATTGATTTCTCATAATCGGAGATACTCCAACCCCGATTTTATTGCTAAAACACTAA
TTTT
Found at i:235217 original size:77 final size:78
Alignment explanation
Indices: 235037--235239 Score: 221
Period size: 77 Copynumber: 2.6 Consensus size: 78
235027 CGTTAATCAT
* *
235037 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
235102 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * * * ** *
235116 TGGAGATACTCTAACCTCGTTATTTTCGAGGGGATACTCCAATCCCGATTT-TTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
235179 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* * * *
235193 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
235240 TTATTATCTC
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
76 3 0.03
77 54 0.53
78 4 0.04
79 40 0.40
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:247651 original size:9 final size:9
Alignment explanation
Indices: 247637--247692 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
247627 CCTTCTCTTC
247637 AAAAAAGAA
1 AAAAAAGAA
247646 AAAAAA-ACA
1 AAAAAAGA-A
*
247655 AAAAAA-CA
1 AAAAAAGAA
*
247663 AAAAAACAA
1 AAAAAAGAA
*
247672 AACAAAGAA
1 AAAAAAGAA
247681 AAAAAAGAA
1 AAAAAAGAA
247690 AAA
1 AAA
247693 TCTGCTTAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
8 8 0.20
9 32 0.80
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:247658 original size:17 final size:17
Alignment explanation
Indices: 247636--247686 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
247626 ACCTTCTCTT
247636 CAAAAAAGAAAAAAAAA
1 CAAAAAAGAAAAAAAAA
*
247653 CAAAAAA-ACAAAAAAA
1 CAAAAAAGAAAAAAAAA
247669 CAAAACAAAGAAAAAAAA
1 C-AAA-AAAGAAAAAAAA
247687 GAAAAATCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 9 0.31
17 10 0.34
18 3 0.10
19 7 0.24
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (17 bp):
CAAAAAAGAAAAAAAAA
Found at i:247664 original size:25 final size:25
Alignment explanation
Indices: 247636--247685 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
247626 ACCTTCTCTT
247636 CAAAAAAGA-AAAAAAAACAAAAAAA
1 CAAAAAA-ACAAAAAAAACAAAAAAA
* *
247661 CAAAAAAACAAAACAAAGAAAAAAA
1 CAAAAAAACAAAAAAAACAAAAAAA
247686 AGAAAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (25 bp):
CAAAAAAACAAAAAAAACAAAAAAA
Found at i:247673 original size:21 final size:19
Alignment explanation
Indices: 247637--247692 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 19
247627 CCTTCTCTTC
*
247637 AAAAAAGAAAAAAAAACAA
1 AAAAAAAAAAAAAAAACAA
247656 AAAAACAAAAAAACAAAACAA
1 AAAAA-AAAAAAA-AAAACAA
247677 AGAAAAAAAAGAAAAA
1 A-AAAAAAAA-AAAAA
247693 TCTGCTTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 14 0.44
22 7 0.22
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAACAA
Found at i:247692 original size:8 final size:8
Alignment explanation
Indices: 247636--247685 Score: 64
Period size: 8 Copynumber: 6.0 Consensus size: 8
247626 ACCTTCTCTT
247636 CAAAAAAGA
1 CAAAAAA-A
*
247645 AAAAAAAA
1 CAAAAAAA
247653 CAAAAAAA
1 CAAAAAAA
247661 CAAAAAAA
1 CAAAAAAA
247669 CAAAACAAA
1 CAAAA-AAA
*
247678 GAAAAAAA
1 CAAAAAAA
247686 AGAAAAATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
8 24 0.65
9 13 0.35
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:248782 original size:60 final size:61
Alignment explanation
Indices: 248655--249174 Score: 544
Period size: 60 Copynumber: 9.0 Consensus size: 61
248645 TCCTTCCGCT
* *
248655 TTCCAGTCCTCAAAGACCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCA-C
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
248714 TTCCCAGTCCTTAAAGAGCAGGGCGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCACC
1 TT-CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
248776 TT-CAGTCCTCAAAGAGCA--A-G---ACACCTTTTAAAGCCCACACAAGTTGGTGGCA-C
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
248829 TTCCCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TT-CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* **
248891 TT-CAGTCCTCAAAGAGCAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
**
248945 TTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATT
1 TT-CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
249007 TTCCAGTCCTCAAAGAGCGGGACGCCTT-TTCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * * *
249067 TTTCC-GTCCCCAAAAAGCAGGA---C--C-CCTTTCAAAGCCCACATAAGTTCGTAGCACC
1 -TTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
249122 TTTCAATCCCCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCA
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
249175 TCCTCAAATA
Statistics
Matches: 396, Mismatches: 36, Indels: 62
0.80 0.07 0.13
Matches are distributed among these distances:
53 3 0.01
54 64 0.16
55 77 0.19
56 19 0.05
57 3 0.01
58 2 0.01
59 3 0.01
60 98 0.25
61 87 0.22
62 40 0.10
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (61 bp):
TTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:248865 original size:115 final size:112
Alignment explanation
Indices: 248685--249389 Score: 802
Period size: 115 Copynumber: 6.3 Consensus size: 112
248675 GACGCCTTTT
* *
248685 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTTAAAGAGCAGGGCGCCTTCTCCTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCA-GG-ACC--CTCCTTT
* *
248750 TAAAGCCCACAAAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAAGACAC
62 TAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
*
248800 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA--CC--CTCCTTT
248865 TAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACAC
62 TAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
*
248915 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGA--CC--CTCCTT
* * *
248980 TTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCGGGACGC
61 TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACAC
* * *
249032 CTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCC-GTCCCCAAAAAGCAGGA-CC-CCT
1 C---T-TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACCCTCCT
* * * * * *
249094 TTCAAAGCCCACATAAGTTCGTAGCACCTTTCAATCCCCAAAGAGCAGGACAC
60 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
* *
249147 CTTTCAAAGCCCACACAAGTTGGTGG-------CA-TCCTCAAATAGCAGGACACCT-C--TTAA
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC-CCTCCTTTTAA
* * *
249201 AGCCCACACAAGTTAGTGGTACCTTTCAGTCCCCAAAGAGCAGGACAC
65 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
* * * *
249249 CTTTCAAAGCCCACAGAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCT-C--TTAA
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC-CCTCCTTTTAA
*
249311 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
65 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
* *
249359 CTTTCAAAGCCCACACGAGTTGGTGGCACTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTT
249390 TTTTCAAAGA
Statistics
Matches: 524, Mismatches: 43, Indels: 51
0.85 0.07 0.08
Matches are distributed among these distances:
102 86 0.16
104 3 0.01
109 2 0.00
110 118 0.23
111 2 0.00
112 1 0.00
114 2 0.00
115 178 0.34
116 64 0.12
117 21 0.04
118 1 0.00
120 1 0.00
121 18 0.03
122 27 0.05
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (112 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACCCTCCTTTTAAA
GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
Found at i:249104 original size:26 final size:26
Alignment explanation
Indices: 249075--249159 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
249065 CCTTTCCGTC
*
249075 CCCAAAAAGCAGGACCCCTTTCAAAG
1 CCCAAAAAGCAGGACACCTTTCAAAG
* * **
249101 CCCACATAAGTTC-GTAGCACCTTTCAATC
1 CCCA-AAAAG--CAGGA-CACCTTTCAAAG
*
249130 CCCAAAGAGCAGGACACCTTTCAAAG
1 CCCAAAAAGCAGGACACCTTTCAAAG
249156 CCCA
1 CCCA
249160 CACAAGTTGG
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
26 19 0.43
27 6 0.14
28 5 0.11
29 14 0.32
ACGTcount: A:0.34, C:0.35, G:0.14, T:0.16
Consensus pattern (26 bp):
CCCAAAAAGCAGGACACCTTTCAAAG
Found at i:249121 original size:55 final size:55
Alignment explanation
Indices: 248653--249387 Score: 658
Period size: 55 Copynumber: 13.0 Consensus size: 55
248643 TCTCCTTCCG
* *
248653 CTTTCCAGTCCTCAAAGACCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTTCC-GTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCAC
* * * * *
248713 CTTCCCAGTCCTTAAAGAGCAGGGCGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCAC
1 CTTTCC-GTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCAC
* * *
248775 C-TTCAGTCCTCAAAGAGCAAGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTTCCGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * *
248828 CTTCCCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTTTCC-GTCCTCAAAGAGCAGGA------CACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
248890 C-TTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTTCCGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
248943 TTTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTT-CC-GTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCAC
* * *
249005 TTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCAC
1 CTTTCC-GTCCTCAAAGAGCAGGAC-AC----CTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
249066 CTTTCCGTCCCCAAAAAGCAGGACCCCTTTCAAAGCCCACATAAGTTCGTAGCAC
1 CTTTCCGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
** *
249121 CTTTCAATCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-
1 CTTTCCGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
249175 -------TCCTCAAATAGCAGGACACCTCTT-AAAGCCCACACAAGTTAGTGGTAC
1 CTTTCCGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCAC
* * *
249223 CTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACAGAAGTTGGTGGCA-
1 CTTTCCGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
249277 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
1 CTTTCC-GTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCAC
* * *
249333 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCAC
1 CTTTCCGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
249388 TTTTTTCAAA
Statistics
Matches: 575, Mismatches: 59, Indels: 87
0.80 0.08 0.12
Matches are distributed among these distances:
47 40 0.07
48 2 0.00
53 1 0.00
54 64 0.11
55 215 0.37
56 28 0.05
57 1 0.00
59 5 0.01
60 98 0.17
61 86 0.15
62 30 0.05
64 1 0.00
65 1 0.00
66 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (55 bp):
CTTTCCGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:249328 original size:157 final size:158
Alignment explanation
Indices: 248657--249387 Score: 648
Period size: 157 Copynumber: 4.3 Consensus size: 158
248647 CTTCCGCTTT
* *
248657 CCAGTCCTCAAAGACCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAG
1 CCAGTCCTCAAAGAGCAGGAC-CC---TC-TTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAG
** * * *
248721 TCCTTAAAGAGCAGGGCGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCACCTTCAGTCCTC
60 TCCCCAAAGAGCAGGACACCTT-T-C----AAAGCCCACAAAAGTTGGTGGCACTTTCAGTCCTC
* *
248786 AAAGAGCAAGACACCTTTTAAAGCCCACACAAGTTGGTGG
119 AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGG
*
248826 CACTTCCCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 ------CCAGTCCTCAAAGAGCAGGA--CC--CT-C-TTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
248891 -TTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCCAGTCC
54 TTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACAAAAGTTGGTGGCACTTT--CAGTCC
*
248955 TCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
117 TCAAAGAGCAGGAC-AC--CT-C--TTAAAGCCCACACAAGTTGGTGG
*
249003 CATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 ------CCAGTCCTCAAAGAGCAGGAC-CC---TCTTT-AAAGCCCACACAAGTTGGTGGCACCT
* * * * * * * *
249068 TTCCGTCCCCAAAAAGCAGGACCCCTTTCAAAGCCCACATAAGTTCGTAGCACCTTTCAATCCCC
55 TTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACAAAAGTTGGTGGCA-CTTTCAGTCCTC
249133 AAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGG
119 AAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGG
* * *
249173 -CA-TCCTCAAATAGCAGGACACCTC-TTAAAGCCCACACAAGTTAGTGGTACCTTTCAGTCCCC
1 CCAGTCCTCAAAGAGCAGGAC-CCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
* *
249235 AAAGAGCAGGACACCTTTCAAAGCCCACAGAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG
65 AAAGAGCAGGACACCTTTCAAAGCCCACAAAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGG
249300 ACACCTCTTAAAGCCCACACAAGTTGGTGG
129 ACACCTCTTAAAGCCCACACAAGTTGGTGG
* *
249330 CACCTTTCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCAC
1 ---C---CAGTCCTCAAAGAGCAGGAC-CCTCTTTAAAGCCCACACAAGTTGGTGGCAC
249388 TTTTTTCAAA
Statistics
Matches: 474, Mismatches: 49, Indels: 76
0.79 0.08 0.13
Matches are distributed among these distances:
156 3 0.01
157 113 0.24
158 4 0.01
159 2 0.00
162 17 0.04
163 2 0.00
164 2 0.00
165 41 0.09
169 26 0.05
170 21 0.04
171 19 0.04
172 1 0.00
173 2 0.00
174 4 0.01
175 46 0.10
176 75 0.16
177 92 0.19
178 4 0.01
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (158 bp):
CCAGTCCTCAAAGAGCAGGACCCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCA
AAGAGCAGGACACCTTTCAAAGCCCACAAAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGAC
ACCTCTTAAAGCCCACACAAGTTGGTGG
Found at i:249352 original size:212 final size:216
Alignment explanation
Indices: 248718--249386 Score: 755
Period size: 212 Copynumber: 3.0 Consensus size: 216
248708 TGGCACTTCC
* * * *
248718 CAGTCCTTAAAGAGCAGGGCGCCTTCTCCTTTTAAAGCCCACAAAAGTTGGTGGCACC-TTCAGT
1 CAGTCCTCAAAGAGCAGGACGAC-TCTCC-TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * *
248782 CCTCAAAGAGCAAGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAG
64 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAG
*
248847 TAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGG
129 CAGGA--CC--CT-C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
*
248911 ACACCTTTTAAAGCCCACACAAGTTGGTGG
187 ACACCTTTCAAAGCCCACACAAGTTGGTGG
*
248941 CATTTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 --------CAGTCCTCAAAGAGCAGGACGAC-TCTCC-TTTAAAGCCCACACAAGTTGGTGGCAC
* * *
249005 TTTTCCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
56 CTTT-CAGTCCTCAAAGAGCAGGAC-AC----CTTTCAAAGCCCACACAAGTTGGTGGCA-CTTT
* * * * * * *
249070 CC-GTCCCCAAAAAGCAGGACCC-CTTTCAAAGCCCACATAAGTTCGTAGCACCTTTCAATCCCC
114 CCAGTCCTCAAAGAGCAGGACCCTC-TT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
249133 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
177 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG
* * *
249173 CA-TCCTCAAATAGCAGGAC-AC-CT-C-TTAAAGCCCACACAAGTTAGTGGTACCTTTCAGTCC
1 CAGTCCTCAAAGAGCAGGACGACTCTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * *
249233 CCAAAGAGCAGGACACCTTTCAAAGCCCACAGAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
66 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCA
*
249298 GGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT
131 GGAC-CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTT
*
249363 CAAAGCCCACACGAGTTGGTGG
195 CAAAGCCCACACAAGTTGGTGG
249385 CA
1 CA
249387 CTTTTTTCAA
Statistics
Matches: 387, Mismatches: 37, Indels: 47
0.82 0.08 0.10
Matches are distributed among these distances:
211 5 0.01
212 114 0.29
213 4 0.01
214 1 0.00
216 1 0.00
217 41 0.11
218 3 0.01
219 1 0.00
220 2 0.01
222 1 0.00
223 16 0.04
224 2 0.01
230 3 0.01
231 78 0.20
232 65 0.17
233 2 0.01
235 2 0.01
237 41 0.11
238 5 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (216 bp):
CAGTCCTCAAAGAGCAGGACGACTCTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCA
GGACCCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTC
AAAGCCCACACAAGTTGGTGG
Found at i:250160 original size:19 final size:19
Alignment explanation
Indices: 250137--250222 Score: 121
Period size: 19 Copynumber: 4.8 Consensus size: 19
250127 ATTCAACAAT
*
250137 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
250156 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
250170 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
250188 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
250207 TTGTATCGATACATAA
1 TTGTATCGATACATAA
250223 TTAGCTACTG
Statistics
Matches: 60, Mismatches: 1, Indels: 12
0.82 0.01 0.16
Matches are distributed among these distances:
13 11 0.18
16 2 0.03
18 1 0.02
19 46 0.77
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:250175 original size:13 final size:13
Alignment explanation
Indices: 250157--250181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
250147 ACATAAGTTT
250157 TGTATCGATACAA
1 TGTATCGATACAA
250170 TGTATCGATACA
1 TGTATCGATACA
250182 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:250179 original size:32 final size:32
Alignment explanation
Indices: 250138--250200 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
250128 TTCAACAATT
*
250138 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
250170 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
250201 TAAGTATTGT
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:250280 original size:13 final size:13
Alignment explanation
Indices: 250262--250287 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
250252 CATTTTTCTG
250262 TGTATCAATACAT
1 TGTATCAATACAT
250275 TGTATCAATACAT
1 TGTATCAATACAT
250288 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:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:252795 original size:27 final size:28
Alignment explanation
Indices: 252761--252836 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
252751 TTTCTTCACA
252761 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
252788 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
252816 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
252837 ACTTTATTTC
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:252894 original size:51 final size:50
Alignment explanation
Indices: 252820--253042 Score: 212
Period size: 52 Copynumber: 4.3 Consensus size: 50
252810 TATTTCCGAG
* * * *
252820 GGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
* * * *
252870 AGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 -GGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTT-CATAATC
* * * * *
252922 GAGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTATAATC
1 G-GGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATC
* * * *
252974 GGGGATACTTCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATC
1 -GGGATACTCCAACCCCGATTTTATTTCC--AAAACACTAATTT-TTCATAATC
253028 GGGGATACTCCAACC
1 -GGGATACTCCAACC
253043 TCGTTAATCA
Statistics
Matches: 141, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
51 38 0.27
52 69 0.49
53 1 0.01
54 31 0.22
55 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
Found at i:253095 original size:28 final size:27
Alignment explanation
Indices: 253028--253099 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
253018 CTTCACAATC
* **
253028 GGGGATACTCCAACCTCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* * *
253055 GGGGTTACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
253083 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
253100 AGCTTTATTC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 19 0.51
28 18 0.49
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.24
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:253119 original size:264 final size:264
Alignment explanation
Indices: 252648--253151 Score: 832
Period size: 264 Copynumber: 1.9 Consensus size: 264
252638 TTCTCAATTC
* * * * *
252648 TCCACAATTGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
252713 TACTCCAACTCCGATTTTATTTCCAAAAAAAATACCAATTTCTTCACAATCGGGGATACTCCAAC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
252778 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA
130 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA
* *
252843 TTTCCAAAATATTGATTTTTCATAATCAGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
195 TTCCCAAAATATTGATTTCTCATAATCAGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
252908 ATTTT
260 ATTTT
* *
252913 TCCACAATCGAGGATACTCTAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTATAATCGGGG
1 TCCACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGG
*
252978 ATACTTCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
* *
253042 CTCGTTAATCATCGGGGTTACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-AGCTTT
130 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGA-CTTT
* *
253106 ATTCCCAAAATATTGATTTCTCATAATTAGGGATACTCTAACCCCG
194 ATTCCCAAAATATTGATTTCTCATAATCAGGGATACTCCAACCCCG
253152 TTATTTTCGA
Statistics
Matches: 222, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
263 1 0.00
264 140 0.63
265 45 0.20
266 36 0.16
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (264 bp):
TCCACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTAT
TCCCAAAATATTGATTTCTCATAATCAGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAA
TTTT
Found at i:253234 original size:77 final size:78
Alignment explanation
Indices: 253052--253256 Score: 234
Period size: 77 Copynumber: 2.6 Consensus size: 78
253042 CTCGTTAATC
* * *
253052 ATCGGGGTTACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTCCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTATTCCCAAAAT
* *
253117 ATTGATTTCTCATA
65 ATCGATTTCTCAAA
** * * ** *
253131 ATTAGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTT-TTTTC-TAATC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAAT-
253194 ATCGATTTCTCAAA
65 ATCGATTTCTCAAA
* * * *
253208 ATCGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
253257 TTATTATCTC
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
76 3 0.03
77 56 0.53
78 4 0.04
79 42 0.40
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAATA
TCGATTTCTCAAA
Found at i:258233 original size:13 final size:13
Alignment explanation
Indices: 258215--258239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
258205 TGGGACATTG
258215 TATCGATACAATA
1 TATCGATACAATA
258228 TATCGATACAAT
1 TATCGATACAAT
258240 GTCCCATGTA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:259580 original size:25 final size:26
Alignment explanation
Indices: 259552--259600 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
259542 TCTAAATAGT
259552 TATTATCAA-GGATACTCCAACCTCA
1 TATTATCAAGGGATACTCCAACCTCA
* * *
259577 TATTTTGAAGGGATACTCTAACCT
1 TATTATCAAGGGATACTCCAACCT
259601 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (26 bp):
TATTATCAAGGGATACTCCAACCTCA
Found at i:269201 original size:18 final size:18
Alignment explanation
Indices: 269178--269215 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
269168 AACCATTAAA
269178 GATGATGAAGATAATGAT
1 GATGATGAAGATAATGAT
*
269196 GATGATGATGATAATGAT
1 GATGATGAAGATAATGAT
269214 GA
1 GA
269216 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (18 bp):
GATGATGAAGATAATGAT
Found at i:269213 original size:9 final size:9
Alignment explanation
Indices: 269182--269215 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
269172 ATTAAAGATG
*
269182 ATGAAGATA
1 ATGATGATA
*
269191 ATGATGATG
1 ATGATGATA
269200 ATGATGATA
1 ATGATGATA
269209 ATGATGA
1 ATGATGA
269216 AGTTGACTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (9 bp):
ATGATGATA
Found at i:273916 original size:31 final size:30
Alignment explanation
Indices: 273878--273948 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
273868 TAACGATTCA
* * *
273878 TTCATCAAATTTCTTCAAATCATTTTCAAAT
1 TTCATCAAATTACATCAAAACA-TTTCAAAT
**
273909 TTCATCAATATTACATCAAAACATTTCATTT
1 TTCATCAA-ATTACATCAAAACATTTCAAAT
273940 TTCATCAAA
1 TTCATCAAA
273949 ATCAACAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 1 0.03
31 22 0.65
32 11 0.32
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (30 bp):
TTCATCAAATTACATCAAAACATTTCAAAT
Found at i:277773 original size:16 final size:15
Alignment explanation
Indices: 277752--277781 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
277742 TTACTTTTTC
277752 TCTTTTCTTCCTCTTT
1 TCTTTTCTT-CTCTTT
277768 TCTTTTCTTCTCTT
1 TCTTTTCTTCTCTT
277782 CATGCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TCTTTTCTTCTCTTT
Found at i:277957 original size:26 final size:24
Alignment explanation
Indices: 277910--277962 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 24
277900 TCCATCCTTT
277910 TCCCTTTTTTTCTTACTTTTCTTC
1 TCCCTTTTTTTCTTACTTTTCTTC
277934 TCCCTTCTCTTTTCTT-CTTCTTCTTC
1 TCCCTT-T-TTTTCTTACTT-TTCTTC
277960 TCC
1 TCC
277963 TCATGCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 6 0.23
25 4 0.15
26 16 0.62
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (24 bp):
TCCCTTTTTTTCTTACTTTTCTTC
Found at i:277990 original size:182 final size:177
Alignment explanation
Indices: 277762--278156 Score: 430
Period size: 182 Copynumber: 2.2 Consensus size: 177
277752 TCTTTTCTTC
* * * *
277762 CTCTTTTCTT-TTCTTC-TCT-TCATGCTTTTTTGCTGATTTGGGGAGCTTTCTTTGCTGATTTC
1 CTCTTTTCTTCTTCTTCTTCTCTCATGCTTATTTGTTCATTTAGGGAGCTTTCTTTGCTGATTTC
* * * * * * *
277824 TAGCACCAGAA-CTAAAATAGTAGC-TGCTGCTGGAGTTCCAAAAATAGTAGTTAAAGTTGCC-G
66 CAACACCAAAATCGAAAATAGTAGCGTGCTGCTGGAGTTCCAAAAACAGTAGCTAAAGTT-CCAA
* **
277886 AACATTAT-TTCTTTTCCATCCTTTTCCCTTTTTTTCTTACTTTTCTTCTCCCTT
130 AACATT-TCTTCTTTTACATCCTTTTCCC-CGTTTT-TT-C--TT-TTCTCCCTT
*
277940 CTCTTTTCTTCTTCTTCTTCTCCTCATGCTTATTTGTTCATTTAGGGAGCTTTCTTTGTTGATTT
1 CTCTTTTCTTCTTCTTCTTCT-CTCATGCTTATTTGTTCATTTAGGGAGCTTTCTTTGCTGATTT
* * **
278005 CCAACACTAAAATCGAAACTAGTAGCTGGTGCTGCTGGAGTTCCAAAAACAGTAGCTGGAGTTCC
65 CCAACACCAAAATCGAAAATAGTAGC--GTGCTGCTGGAGTTCCAAAAACAGTAGCTAAAGTTCC
*
278070 AAAAACATTTGCTTCTTTTACATCCTTTTCCCCGTTTTTTCTTTTCTCCTTT
128 -AAAACATTT-CTTCTTTTACATCCTTTTCCCCGTTTTTTCTTTTCTCCCTT
278122 CTCTTTTCTTCTTCTT-TTCT-TCATGCTTATTTGTT
1 CTCTTTTCTTCTTCTTCTTCTCTCATGCTTATTTGTT
278157 GAATTTTGGA
Statistics
Matches: 185, Mismatches: 20, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
178 10 0.05
179 21 0.11
180 3 0.02
181 4 0.02
182 69 0.37
183 13 0.07
185 3 0.02
186 33 0.18
187 10 0.05
188 19 0.10
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.47
Consensus pattern (177 bp):
CTCTTTTCTTCTTCTTCTTCTCTCATGCTTATTTGTTCATTTAGGGAGCTTTCTTTGCTGATTTC
CAACACCAAAATCGAAAATAGTAGCGTGCTGCTGGAGTTCCAAAAACAGTAGCTAAAGTTCCAAA
ACATTTCTTCTTTTACATCCTTTTCCCCGTTTTTTCTTTTCTCCCTT
Found at i:278285 original size:20 final size:20
Alignment explanation
Indices: 278249--278286 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
278239 TCTTTTTTTT
*
278249 TTTTTTTTGTTGTGTGTTGC
1 TTTTTCTTGTTGTGTGTTGC
278269 TTTTTCTTGCTTG-GTGTT
1 TTTTTCTTG-TTGTGTGTT
278287 TGTTTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.00, C:0.08, G:0.24, T:0.68
Consensus pattern (20 bp):
TTTTTCTTGTTGTGTGTTGC
Found at i:278983 original size:7 final size:7
Alignment explanation
Indices: 278973--279009 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
278963 AAAAAAATGA
278973 AAAAAAT
1 AAAAAAT
278980 AAAAAAT
1 AAAAAAT
*
278987 AAACAAT
1 AAAAAAT
278994 --AAAAT
1 AAAAAAT
278999 AAAAAAT
1 AAAAAAT
279006 AAAA
1 AAAA
279010 TTGAGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
5 4 0.15
7 22 0.85
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:278984 original size:19 final size:19
Alignment explanation
Indices: 278972--279008 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
278962 AAAAAAAATG
278972 AAAAAAATAAAAAATAAAC
1 AAAAAAATAAAAAATAAAC
*
278991 AATAAAATAAAAAATAAA
1 AAAAAAATAAAAAATAAA
279009 ATTGAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAAAAATAAAAAATAAAC
Found at i:278997 original size:12 final size:12
Alignment explanation
Indices: 278964--279010 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
278954 TCATATGTAA
278964 AAAAAATGAAAA-
1 AAAAAAT-AAAAT
*
278976 AAATAA-AAAAT
1 AAAAAATAAAAT
*
278987 AAACAATAAAAT
1 AAAAAATAAAAT
278999 AAAAAATAAAAT
1 AAAAAATAAAAT
279011 TGAGTTTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 4 0.13
11 5 0.17
12 21 0.70
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:280290 original size:43 final size:43
Alignment explanation
Indices: 280156--280869 Score: 386
Period size: 43 Copynumber: 16.7 Consensus size: 43
280146 CTAAGCTAAT
* * * * *
280156 GGCAGACAAAAAAT-AAGGGAGTTTCCCCAGTCTAAGCCAATG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* ** * * ** **
280198 GGCAAATGAAAGATAAAGAAAGTCT-TCTTGTCTAAGCCGACA
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* *
280240 GGAAGACAAAAGATAAAGGAAGTCTCCCGGGTCTAAGCCGATG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* * * * *
280283 GGTAGACAAAAGATAAAAGAAGTCT-CCTAGGTCTAAGTCGACG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGA-GTCTAAGCCGATG
* * *
280326 GGCAAACGAAAGATAAAGGAGGTCTCCCGAGTCTAAGCCGATG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* * * *
280369 GGCAGACAAAAGATAAAAGAAGTGTCCTGTG-CTTAAGCCGATG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTC-TAAGCCGATG
* * * * * *
280412 GAC-GA-ATGAAAGATAAAAGAGGTCTCCCGAGTTTAAGTCTATG
1 GGCAGACA--AAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* * * * * * *
280455 GGCAGACGAAAGAT-AACGAAGGTCTCCCAAGTTTAAGTCAACG
1 GGCAGACAAAAGATAAAGGAA-GTCTCCCGAGTCTAAGCCGATG
* * * * * **
280498 GGAAGACAAAAAATAAAAGAAGTCTCTCGAGTCTAAGCTGACA
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* * ** * * *
280541 AGCAGACAAAAGATAACA-AAAGTCTTTCGGGTCTAAGTCAATG
1 GGCAGACAAAAGATAA-AGGAAGTCTCCCGAGTCTAAGCCGATG
* * * * * * * *
280584 GGTAGACGAAAGATAAAGGAGGTCTTCTGGGTCTAAGTCGAAG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* * * * * * * *
280627 GGCAGACGAAATATAAAGGAGGTTTTCTGGGTCTAAGTCGATG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
** ** * **
280670 GGCAGATGAAAGATAAAGGAAGTCTTTCAAGTCTAAGCATATG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* * * * * *
280713 AGCAGACGAAAGATAATA--AAGATTTCTCGAGTCTAAGTCGATA
1 GGCAGACAAAAGATAA-AGGAAG-TCTCCCGAGTCTAAGCCGATG
* * * ** * * *
280756 GGTAGACAAAAGTTAAAGAAAGTCTCTTGGGTCTAGGCCAATG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* * * ** *
280799 GGCAGACGAAAGATAAGGGAAGTCTCCCAAGTCTAAATCGACG
1 GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
* *
280842 GGTAGACAAAAGATAAGGGAAGTCTCCC
1 GGCAGACAAAAGATAAAGGAAGTCTCCC
280870 AGGGTCAAAG
Statistics
Matches: 513, Mismatches: 141, Indels: 35
0.74 0.20 0.05
Matches are distributed among these distances:
41 1 0.00
42 55 0.11
43 442 0.86
44 15 0.03
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.19
Consensus pattern (43 bp):
GGCAGACAAAAGATAAAGGAAGTCTCCCGAGTCTAAGCCGATG
Found at i:280385 original size:129 final size:129
Alignment explanation
Indices: 280132--280869 Score: 460
Period size: 129 Copynumber: 5.7 Consensus size: 129
280122 AAGAGATGAA
* ** * * * * * *
280132 GAAGTCTCTTGGGTCTAAGCTAAT-GGCAGACAAAAAAT-AAGGGAGTTTCCCCA-GTCTAAGCC
1 GAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAAAAGATAAAAGAAGTCT-CCTAGGTCTAAGTC
* * * * * * ** * *
280194 AATGGGCAAATGAAAGATAAAGAAAGTCT-TCTTGTCTAAGCCGACAGGAAGACAAAAGATAAAG
65 GATGGGCAGACGAAAGATAAAGGAGGTCTCCCGAGTCTAAGTCGACGGGAAGACAAAAGATAAAG
* *
280258 GAAGTCTCCCGGGTCTAAGCCGATGGGTAGACAAAAGATAAAAGAAGTCTCCTAGGTCTAAGTCG
1 GAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAAAAGATAAAAGAAGTCTCCTAGGTCTAAGTCG
* * * * * *
280323 ACGGGCAAACGAAAGATAAAGGAGGTCTCCCGAGTCTAAGCCGATGGGCAGACAAAAGATAAAA
66 ATGGGCAGACGAAAGATAAAGGAGGTCTCCCGAGTCTAAGTCGACGGGAAGACAAAAGATAAAG
* * * * * *
280387 GAAGTGTCCTGTG-CTTAAGCCGATGGAC-GA-ATGAAAGATAAAAGAGGTCTCC-CGAGTTTAA
1 GAAGTCTCCTGGGTC-TAAGCCGATGGGCAGACA--AAAGATAAAAGAAGTCTCCTAG-GTCTAA
* * * * * * *
280448 GTCTATGGGCAGACGAAAGATAACGAAGGTCTCCCAAGTTTAAGTCAACGGGAAGACAAAAAATA
62 GTCGATGGGCAGACGAAAGATAAAGGAGGTCTCCCGAGTCTAAGTCGACGGGAAGACAAAAGATA
*
280513 AAA
127 AAG
* * *** * *
280516 GAAGTCT-CTCGAGTCTAAGCTGACAAGCAGACAAAAGATAACAA-AAGTCT-TTCGGGTCTAAG
1 GAAGTCTCCT-GGGTCTAAGCCGATGGGCAGACAAAAGATAA-AAGAAGTCTCCT-AGGTCTAAG
* * * * * * * * *
280578 TCAATGGGTAGACGAAAGATAAAGGAGGTCTTCTGGGTCTAAGTCGAAGGGCAGACGAAATATAA
63 TCGATGGGCAGACGAAAGATAAAGGAGGTCTCCCGAGTCTAAGTCGACGGGAAGACAAAAGATAA
280643 AG
128 AG
* * * * ** * * *
280645 GAGGTTTTCTGGGTCTAAGTCGATGGGCAGATGAAAGATAAAGGAAGTCT-TTCAAGTCTAAG-C
1 GAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAAAAGATAAAAGAAGTCTCCT-AGGTCTAAGTC
* * * * * * ** * *
280708 ATATGAGCAGACGAAAGATAATA-AAGATTTCTCGAGTCTAAGTCGATAGGTAGACAAAAGTTAA
65 -GATGGGCAGACGAAAGATAA-AGGAGGTCTCCCGAGTCTAAGTCGACGGGAAGACAAAAGATAA
280772 AG
128 AG
* * * * * ** * * *
280774 AAAGTCTCTTGGGTCTAGGCCAATGGGCAGACGAAAGATAAGGGAAGTCTCCCAAGTCTAAATCG
1 GAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAAAAGATAAAAGAAGTCTCCTAGGTCTAAGTCG
* * * * *
280839 ACGGGTAGACAAAAGATAAGGGAAGTCTCCC
66 ATGGGCAGACGAAAGATAAAGGAGGTCTCCC
280870 AGGGTCAAAG
Statistics
Matches: 468, Mismatches: 122, Indels: 41
0.74 0.19 0.06
Matches are distributed among these distances:
126 20 0.04
127 16 0.03
128 47 0.10
129 374 0.80
130 10 0.02
131 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (129 bp):
GAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAAAAGATAAAAGAAGTCTCCTAGGTCTAAGTCG
ATGGGCAGACGAAAGATAAAGGAGGTCTCCCGAGTCTAAGTCGACGGGAAGACAAAAGATAAAG
Found at i:280937 original size:42 final size:41
Alignment explanation
Indices: 280889--281203 Score: 287
Period size: 42 Copynumber: 7.5 Consensus size: 41
280879 GCTAACAAGC
* *
280889 AGACTAAAGGTAAGGAAGTCTCCAAAGTCAAAGCCGATAGGT
1 AGACTAAAGGTAA-AAAGTCTCCAAGGTCAAAGCCGATAGGT
* * * *
280931 AAACTAAAGGTAAAAAAGTCTCCAAGGTCAAAGTCAGCTA-CT
1 AGACTAAAGGT-AAAAAGTCTCCAAGGTCAAAG-CCGATAGGT
280973 AGACTAAAGGTAAAAATGTCTCCAAGGTCAAAGCCGATAGGT
1 AGACTAAAGGTAAAAA-GTCTCCAAGGTCAAAGCCGATAGGT
* * *
281015 AGACTAAAGGTAAAAA-TATCTCAGTGGTCAAAGCCGATAGGC
1 AGACTAAAGGTAAAAAGTCTC-CA-AGGTCAAAGCCGATAGGT
* *
281057 AGACTAAAGGTAAAGAAATCTCCAA-GTCAAAGCCAATAGGT
1 AGACTAAAGGTAAA-AAGTCTCCAAGGTCAAAGCCGATAGGT
* * * * * *
281098 AGACTAAAGGTAAAAATGTCT-CTAGAGCCAAAGTCGACAAGC
1 AGACTAAAGGTAAAAA-GTCTCCAAG-GTCAAAGCCGATAGGT
* * * * * *
281140 AAACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAAGT
1 AGACTAAAGGTAA-AAAGTCTCCAAGGTCAAAGCCGATAGGT
*
281182 AGACTAAAGGGGAAAAAGTCTC
1 AGACTAAA-GGTAAAAAGTCTC
281204 TAGGGTGGTA
Statistics
Matches: 223, Mismatches: 36, Indels: 28
0.78 0.13 0.10
Matches are distributed among these distances:
40 7 0.03
41 42 0.19
42 154 0.69
43 17 0.08
44 3 0.01
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (41 bp):
AGACTAAAGGTAAAAAGTCTCCAAGGTCAAAGCCGATAGGT
Found at i:280979 original size:84 final size:82
Alignment explanation
Indices: 280886--281203 Score: 338
Period size: 84 Copynumber: 3.8 Consensus size: 82
280876 AAAGCTAACA
*
280886 AGCAGACTAAAGGTAAGGAAGTCTCCAAAGTCAAAGCCGATAGGTAAACTAAAGGTAAAAAAGTC
1 AGCAGACTAAAGGTAAGGAAGTCTCCAAAGTCAAAGCCGATAGGTAGACTAAAGGTAAAAAAGTC
280951 TCCAAGGTCAAAGTCAGCT
66 T-CAAGGTCAAAGTC-GCT
* *
280970 A-CTAGACTAAAGGTAA-AAATGTCTCCAAGGTCAAAGCCGATAGGTAGACTAAAGGTAAAAATA
1 AGC-AGACTAAAGGTAAGGAA-GTCTCCAAAGTCAAAGCCGATAGGTAGACTAAAGGTAAAAA-A
* * *
281033 -TCTCAGTGGTCAAAGCCGAT
63 GTCTCA-AGGTCAAAGTCGCT
* * * *
281053 AGGCAGACTAAAGGTAAAGAAATCTCC-AAGTCAAAGCCAATAGGTAGACTAAAGGTAAAAATGT
1 A-GCAGACTAAAGGTAAGGAAGTCTCCAAAGTCAAAGCCGATAGGTAGACTAAAGGTAAAAAAGT
* * *
281117 CTCTAGAGCCAAAGTCGACA
65 CTCAAG-GTCAAAGTCG-CT
* * ** * * **
281137 AGCAAACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAAGTAGACTAAAGGGGAAAAAGTC
1 AGCAGACTAAAGGTAAGGAAGTCTCCAAAGTCAAAGCCGATAGGTAGACTAAAGGTAAAAAAGTC
281202 TC
66 TC
281204 TAGGGTGGTA
Statistics
Matches: 194, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
82 1 0.01
83 73 0.38
84 116 0.60
85 4 0.02
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (82 bp):
AGCAGACTAAAGGTAAGGAAGTCTCCAAAGTCAAAGCCGATAGGTAGACTAAAGGTAAAAAAGTC
TCAAGGTCAAAGTCGCT
Found at i:281149 original size:167 final size:168
Alignment explanation
Indices: 280887--281191 Score: 413
Period size: 167 Copynumber: 1.8 Consensus size: 168
280877 AAGCTAACAA
* * *
280887 GCAGACTAAAGGTAAGGAAGTCTCCAAAGTCAAAGCCGATAGGTAAACTAAAGGTAAAAAAGTCT
1 GCAGACTAAAGGTAAAGAAATCTCCAAAGTCAAAGCCAATAGGTAAACTAAAGGTAAAAAAGTCT
* * * * *
280952 CCAAGGTCAAAGTCAGCTACTAGACTAAAGGTAA-AAATGTCTCCAAGGTCAAAGCCGATAGGTA
66 CCAAGGCCAAAGTCAGCAACTAAACTAAAGGTAAGAAA-GTCTCCAAGGTCAAAGCCGACAAGTA
281016 GACTAAAGGTAAAAATATCTCAGTGGTCAAAGCCGATAG
130 GACTAAAGGTAAAAATATCTCAGTGGTCAAAGCCGATAG
* *
281055 GCAGACTAAAGGTAAAGAAATCTCC-AAGTCAAAGCCAATAGGTAGACTAAAGGTAAAAATGTCT
1 GCAGACTAAAGGTAAAGAAATCTCCAAAGTCAAAGCCAATAGGTAAACTAAAGGTAAAAAAGTCT
* * * *
281119 -CTAGAGCCAAAGTC-GACAAGC-AAACTAAAGGTAAGGAAGTCTCTAGGGTCAAAGCCGACAAG
66 CCAAG-GCCAAAGTCAG-CAA-CTAAACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAG
281181 TAGACTAAAGG
128 TAGACTAAAGG
281192 GGAAAAAGTC
Statistics
Matches: 119, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
166 4 0.03
167 89 0.75
168 26 0.22
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (168 bp):
GCAGACTAAAGGTAAAGAAATCTCCAAAGTCAAAGCCAATAGGTAAACTAAAGGTAAAAAAGTCT
CCAAGGCCAAAGTCAGCAACTAAACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAAGTAG
ACTAAAGGTAAAAATATCTCAGTGGTCAAAGCCGATAG
Found at i:281253 original size:44 final size:43
Alignment explanation
Indices: 281203--281307 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
281193 GAAAAAGTCT
* * *
281203 CTAGGGTGGTAACCATACATCAGATAGGAA-AAAGGTAGATTTGA
1 CTAGGGTGGTAACCATACATCAAATAGGAAGAAAAG-A-ATCTGA
* * *
281247 CTAGGGTGATAACCATACGTCAAATCGGAATGAAAAGAATCTGA
1 CTAGGGTGGTAACCATACATCAAATAGGAA-GAAAAGAATCTGA
*
281291 CTAGGGTAGTAACCATA
1 CTAGGGTGGTAACCATA
281308 TGTTAGATCA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 46 0.90
45 1 0.02
46 4 0.08
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (43 bp):
CTAGGGTGGTAACCATACATCAAATAGGAAGAAAAGAATCTGA
Found at i:281407 original size:47 final size:47
Alignment explanation
Indices: 281325--281567 Score: 207
Period size: 47 Copynumber: 5.0 Consensus size: 47
281315 TCAAAATGAG
** * * *
281325 AAAAGTTTGACTTGGATCTTAATGCCACTACAGTCAAACGAGGGTGAA
1 AAAAGTTTGACCAGG-TCCTAATGCCAATATAGTCAAACGAGGGTGAA
* ** *
281373 AAAAGTTTGACTAGGTCCTAATGCCAATATAGTCAAACGAAAGTGGA
1 AAAAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACGAGGGTGAA
* * * * *
281420 AAGAGTTTGACCAGGTCCTAACGCCAATATAGTCAAACAAAGGTGAG
1 AAAAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACGAGGGTGAA
* * * * *
281467 AAGAGTTTGACCAAGTCCTAATGCCAATATAGCCAAATGTGGGTAAGATAAA
1 AAAAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACGAGGGT--G---AA
* * ** *
281519 AAAAGTTTGACCAAGCCCTAACACCAATACAGTCAAACGAGGGATGAA
1 AAAAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACGAGGG-TGAA
281567 A
1 A
281568 TGAGTTTTGC
Statistics
Matches: 159, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
47 103 0.65
48 17 0.11
49 1 0.01
51 1 0.01
52 36 0.23
53 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (47 bp):
AAAAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACGAGGGTGAA
Found at i:282125 original size:13 final size:13
Alignment explanation
Indices: 282107--282133 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
282097 ACATGCTGCT
282107 TTGTATCGATACA
1 TTGTATCGATACA
282120 TTGTATCGATACA
1 TTGTATCGATACA
282133 T
1 T
282134 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:282130 original size:33 final size:32
Alignment explanation
Indices: 282088--282152 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
282078 CACACCCAGA
*
282088 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
282121 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
282153 GGCTAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:282142 original size:19 final size:20
Alignment explanation
Indices: 282116--282174 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
282106 TTTGTATCGA
282116 TACATTGTATCGATACATG-
1 TACATTGTATCGATACATGC
*
282135 TTCATTGTATCGATACATGGC
1 TACATTGTATCGATACAT-GC
*
282156 TAAATTGTATCGATACATG
1 TACATTGTATCGATACATG
282175 AAACTGGCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.49
20 2 0.06
21 16 0.46
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
TACATTGTATCGATACATGC
Found at i:282164 original size:21 final size:20
Alignment explanation
Indices: 282119--282174 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
282109 GTATCGATAC
**
282119 ATTGTATCGATACAT-GTTC
1 ATTGTATCGATACATGGTAA
282138 ATTGTATCGATACATGGCTAA
1 ATTGTATCGATACATGG-TAA
282159 ATTGTATCGATACATG
1 ATTGTATCGATACATG
282175 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 15 0.45
20 1 0.03
21 17 0.52
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGGTAA
Found at i:282240 original size:13 final size:13
Alignment explanation
Indices: 282219--282249 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
282209 CGATACATGG
*
282219 TACAATGTATCGA
1 TACATTGTATCGA
282232 TACATTGTATCGA
1 TACATTGTATCGA
282245 TACAT
1 TACAT
282250 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:282259 original size:33 final size:33
Alignment explanation
Indices: 282203--282269 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
282193 CTATCACTAT
*
282203 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCAATACA
282236 TTGTATCGATACATGAAG-A-AATGTATCAATACA
1 TTGTATCGATACATG--GTACAATGTATCAATACA
282269 T
1 T
282270 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATCAATACA
Found at i:287016 original size:32 final size:33
Alignment explanation
Indices: 286975--287037 Score: 110
Period size: 34 Copynumber: 1.9 Consensus size: 33
286965 CAGCCAAACT
286975 TGTATCGATACAC-AAAATATGTATCGATATAA
1 TGTATCGATACACAAAAATATGTATCGATATAA
287007 TGTATCGATACACAAAAAATATGTATCGATA
1 TGTATCGATACAC-AAAAATATGTATCGATA
287038 CATTGGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.45
34 16 0.55
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATATAA
Found at i:287104 original size:20 final size:21
Alignment explanation
Indices: 287074--287112 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
287064 CTATATTTTC
287074 AAATATGTATCGATACATCAA
1 AAATATGTATCGATACATCAA
287095 AAAT-TGTATCGATACATC
1 AAATATGTATCGATACATC
287113 CACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (21 bp):
AAATATGTATCGATACATCAA
Found at i:293384 original size:20 final size:20
Alignment explanation
Indices: 293346--293385 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
293336 TTTTGTAAAA
293346 TACTTGTTTTTCACTTCAAAT
1 TACTTGTTTTTCAC-TCAAAT
293367 TACTTCGTTTTTCA-TCAAA
1 TACTT-GTTTTTCACTCAAA
293386 ACCAACATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (20 bp):
TACTTGTTTTTCACTCAAAT
Found at i:293686 original size:20 final size:21
Alignment explanation
Indices: 293661--293703 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
293651 GGCAGCACCA
*
293661 CCAGGTCGCGACC-GGCAGTC
1 CCAGGTCGCAACCGGGCAGTC
293681 CCAGGTCGCAACCGGGCAGTC
1 CCAGGTCGCAACCGGGCAGTC
293702 CC
1 CC
293704 CATACTAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.16, C:0.42, G:0.33, T:0.09
Consensus pattern (21 bp):
CCAGGTCGCAACCGGGCAGTC
Found at i:295768 original size:32 final size:33
Alignment explanation
Indices: 295727--295789 Score: 110
Period size: 34 Copynumber: 1.9 Consensus size: 33
295717 TAGCCAAACT
295727 TGTATCGATACAC-AAAATATGTATCGATATAA
1 TGTATCGATACACAAAAATATGTATCGATATAA
295759 TGTATCGATACACAAAAAATATGTATCGATA
1 TGTATCGATACAC-AAAAATATGTATCGATA
295790 CATTGGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.45
34 16 0.55
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATATAA
Found at i:295856 original size:20 final size:21
Alignment explanation
Indices: 295826--295864 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
295816 CTATATTTTC
295826 AAATATGTATCGATACATCAA
1 AAATATGTATCGATACATCAA
295847 AAAT-TGTATCGATACATC
1 AAATATGTATCGATACATC
295865 CACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (21 bp):
AAATATGTATCGATACATCAA
Found at i:300542 original size:13 final size:13
Alignment explanation
Indices: 300524--300549 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
300514 TATACAAAGT
300524 ATGTATCGATACA
1 ATGTATCGATACA
300537 ATGTATCGATACA
1 ATGTATCGATACA
300550 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:300547 original size:32 final size:33
Alignment explanation
Indices: 300506--300569 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
300496 TAGCCAAACT
* **
300506 TGTATCGATATACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
300538 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
300570 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:301481 original size:44 final size:44
Alignment explanation
Indices: 301418--301506 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
301408 AACAAATGAA
301418 TTAATTATGCTAAACAAGGAAAAAAAAAGAAAACGTAATAATCG
1 TTAATTATGCTAAACAAGGAAAAAAAAAGAAAACGTAATAATCG
301462 TTAATTATGCTAAACAAGGAAAAAAAAAGAAAACGTAATAATCG
1 TTAATTATGCTAAACAAGGAAAAAAAAAGAAAACGTAATAATCG
301506 T
1 T
301507 AATGTGTCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.56, C:0.09, G:0.13, T:0.21
Consensus pattern (44 bp):
TTAATTATGCTAAACAAGGAAAAAAAAAGAAAACGTAATAATCG
Found at i:303726 original size:19 final size:19
Alignment explanation
Indices: 303698--303747 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
303688 AGCGATACAT
*
303698 TGTATTGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
303717 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
303736 TGTATCGATACA
1 TGTATCGATACA
303748 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:303754 original size:13 final size:13
Alignment explanation
Indices: 303736--303760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
303726 ACAACACTTA
303736 TGTATCGATACAT
1 TGTATCGATACAT
303749 TGTATCGATACA
1 TGTATCGATACA
303761 AATTGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:306502 original size:13 final size:13
Alignment explanation
Indices: 306484--306520 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
306474 ACAATATTCC
306484 TTGTATCGATACA
1 TTGTATCGATACA
306497 TTGTATCGATACA
1 TTGTATCGATACA
* *
306510 CTATATCGATA
1 TTGTATCGATA
306521 TATAAGGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:308448 original size:29 final size:29
Alignment explanation
Indices: 308415--308471 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
308405 AAATTTTTGA
*
308415 GAATTTCTTTGATTAAGGGGGAGAAAAAC
1 GAATTGCTTTGATTAAGGGGGAGAAAAAC
*
308444 GAATTGCTTTGATTAAGGTGGAGAAAAA
1 GAATTGCTTTGATTAAGGGGGAGAAAAA
308472 TGAAAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.28, T:0.28
Consensus pattern (29 bp):
GAATTGCTTTGATTAAGGGGGAGAAAAAC
Done.