Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 2 of 25
Found at i:143677 original size:18 final size:20
Alignment explanation
Indices: 143656--143696 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
143646 TAACAATTAT
143656 AATTATAATTAT-ATTAA-C
1 AATTATAATTATAATTAATC
143674 AATTATAATTATAATTAATC
1 AATTATAATTATAATTAATC
143694 AAT
1 AAT
143697 CTTTTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.57
19 5 0.24
20 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTATAATTATAATTAATC
Found at i:144346 original size:93 final size:93
Alignment explanation
Indices: 144187--144370 Score: 242
Period size: 93 Copynumber: 2.0 Consensus size: 93
144177 TTTCAACCGT
* * *
144187 TCCAATTGACGGACCCCTTGTGAGACTTTCTTTGGCCTGTTAATGGCTTCTCCTCCGCTCTTATC
1 TCCAATTGACGGACCCCTTGAGAGACTTTCTTCGGCCTGTTAATGGCTTCCCCTCCGCTCTTATC
* *
144252 CTGCATTGGATTTGAATCAGATTGATGG
66 CTGCATTGAATTTGAATCAGACTGATGG
* * * * ** * *
144280 TCCAATTGGCTGACTCCTTGAGAGATTTTCTTCGGTTTGTTAATGGCTTCCCCTTCGGTCTTATC
1 TCCAATTGACGGACCCCTTGAGAGACTTTCTTCGGCCTGTTAATGGCTTCCCCTCCGCTCTTATC
*
144345 CTGCATTGAATTTGAGTCAGACTGAT
66 CTGCATTGAATTTGAATCAGACTGAT
144371 CGTGAGTCTG
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (93 bp):
TCCAATTGACGGACCCCTTGAGAGACTTTCTTCGGCCTGTTAATGGCTTCCCCTCCGCTCTTATC
CTGCATTGAATTTGAATCAGACTGATGG
Found at i:147069 original size:20 final size:20
Alignment explanation
Indices: 147044--147085 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
147034 TAACAAATTG
*
147044 ATATATCAATACATAAGTAA
1 ATATATCAACACATAAGTAA
*
147064 ATATATCGACACATAAGTAA
1 ATATATCAACACATAAGTAA
147084 AT
1 AT
147086 GTATTGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (20 bp):
ATATATCAACACATAAGTAA
Found at i:147656 original size:52 final size:52
Alignment explanation
Indices: 147569--147709 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 52
147559 TCTGGAAAGA
* * *
147569 AAATATATCGATACATTTTTTTATTGTATCAATACATTCTAAG-TTTTTGATCC-
1 AAATGTATCGATACA-TTTTTCATTGTATCGATACATT-TAAGATTTTTGA-CCT
* *
147622 AAATGTATCGATACATTTTTCATTGTGTCGATACATTTTAGATTTTTGACCT
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTTAAGATTTTTGACCT
* *
147674 AAATGTATCGATACATTCTTCAATGTATCGATACAT
1 AAATGTATCGATACATTTTTCATTGTATCGATACAT
147710 CCAGTTAAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
51 5 0.06
52 59 0.76
53 14 0.18
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTTAAGATTTTTGACCT
Found at i:150011 original size:96 final size:96
Alignment explanation
Indices: 149886--150071 Score: 291
Period size: 96 Copynumber: 1.9 Consensus size: 96
149876 CTAATCTTGG
149886 TTTTAAAATTGTCATGATTTAAATCCTATTTTTTCCTAAATTATCATCATCGAGGACACTCCAAC
1 TTTTAAAATTGTCATGATTTAAATCCTATTTTTTCCTAAATTATCATCATCGAGGACACTCCAAC
*
149951 CTCATTCCTCCAAAAAGATACTCCACTTCCT
66 CCCATTCCTCCAAAAAGATACTCCACTTCCT
* * * * *
149982 TTTTAAACTTGTCATGATTTAAATCCTATTTTTTCCTAAATTATCATCCTTGGGGACACTCTAAC
1 TTTTAAAATTGTCATGATTTAAATCCTATTTTTTCCTAAATTATCATCATCGAGGACACTCCAAC
* * *
150047 CCCATTTCTCTAAGAAGATACTCCA
66 CCCATTCCTCCAAAAAGATACTCCA
150072 ACCCTATTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 81 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (96 bp):
TTTTAAAATTGTCATGATTTAAATCCTATTTTTTCCTAAATTATCATCATCGAGGACACTCCAAC
CCCATTCCTCCAAAAAGATACTCCACTTCCT
Found at i:157412 original size:167 final size:165
Alignment explanation
Indices: 157238--157630 Score: 468
Period size: 167 Copynumber: 2.4 Consensus size: 165
157228 AAAACGATTA
* * *
157238 AATTTTTGAAAACTGATTTAACATAAATTAAATAATAATATTTGCTGATTTTTAAAAATTAAAAA
1 AATTTTTGAAAACTGATTTAACATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAA
* * * * *
157303 CCAAGAAAAA-TCCTTCTAAAAACATTTACAAAGTTGAAAACTCTC-TATGTT-GGAAAGAGGGG
66 CCAAGAAAAATTCC-TCAAAAAACATTTACAAAGTAGAAAACTC-CGTAT-TTCGAAAAGAAGAG
* * * *
157365 AATTTCTAAGAAAAAATTCAACAACTTATGAAAATAAATG
128 AATTTC-AA-AAAAAAATCAAAAACTCATGAAAATAAACG
* * *
157405 TATTTTTGAAAACAGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAA
1 AATTTTTGAAAACTGATTTAACATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAA
* ** * *
157470 CCAAGAAAAATTCCTCAAAAAATATTTACGGAGTAGAAAACTCCGTATTTCGAAAATAAGAGAGT
66 CCAAGAAAAATTCCTCAAAAAACATTTACAAAGTAGAAAACTCCGTATTTCGAAAAGAAGAGAAT
* * * *
157535 TTCAAAAAAAAATGAAAAACTCATGAAGATGAGCG
131 TTCAAAAAAAAATCAAAAACTCATGAAAATAAACG
* * * *
157570 AATTTTTGAAAAATAATTTAACATGAATTAAATAATAATATTTTAGGAATTTTAAAAATTA
1 AATTTTTGAAAACTGATTTAACATGAATTAAATAATAATATTTGATGAATTTTAAAAATTA
157631 TAAATTGATG
Statistics
Matches: 192, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
165 76 0.40
166 5 0.03
167 108 0.56
168 3 0.02
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (165 bp):
AATTTTTGAAAACTGATTTAACATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAA
CCAAGAAAAATTCCTCAAAAAACATTTACAAAGTAGAAAACTCCGTATTTCGAAAAGAAGAGAAT
TTCAAAAAAAAATCAAAAACTCATGAAAATAAACG
Found at i:158982 original size:81 final size:81
Alignment explanation
Indices: 158881--159347 Score: 433
Period size: 81 Copynumber: 5.8 Consensus size: 81
158871 AACATTAAAT
* * *
158881 TTTTCATCTTCGGGGGTACTCCAACCCCACCAATTCCGAA-GGGATACTCCAACCCCATCTTCAC
1 TTTTCATCTTCGAGGATACTCCAACCCCACCAATTCC-AAGGGGATACTCCAACCCCATCTTTAC
*
158945 TTCTAAAAACACCGAAC
65 TTCTAAAAACATCGAAC
* * * *
158962 TTTTCATCTTCGAGGATACTCCAACCCCACCATTTTCAAGGGGCTACT-CAACCCC-GCATTTAC
1 TTTTCATCTTCGAGGATACTCCAACCCCACCAATTCCAAGGGGATACTCCAACCCCATC-TTTAC
* *
159025 TTCCAAAAACATCAAAC
65 TTCTAAAAACATCGAAC
* * * *
159042 TTTTCATCTTCGAGGATACTCTAGCCCCACCATTTCTAAGGGGATACTCCAACCCCATCTTTACT
1 TTTTCATCTTCGAGGATACTCCAACCCCACCAATTCCAAGGGGATACTCCAACCCCATCTTTACT
* * *
159107 TTTAAAACCATTGAAC
66 TCTAAAAACATCGAAC
* * * * ** * *
159123 TTTTCATCTTTAGGGGATACTCCAACCCCAACATTTCCAAGGGGATACTATAACCCCGTCTTTGC
1 TTTTCATC-TTCGAGGATACTCCAACCCCACCAATTCCAAGGGGATACTCCAACCCCATCTTTAC
* * * * *
159188 ATCCAGAAACATTGAAT
65 TTCTAAAAACATCGAAC
* * * * ** *
159205 TTTTCATCTACG-GAGTTACTCCAACCCCACCATTTCTAAAAGGATACTCTAACCCCATCTTTAC
1 TTTTCATCTTCGAG-GATACTCCAACCCCACCAATTCCAAGGGGATACTCCAACCCCATCTTTAC
* *
159269 TTCTAAAAATATC-AAA
65 TTCTAAAAACATCGAAC
* ** * * *
159285 TTTTCCATCTTCTAGGATGTTCCAACCCTA-CTATCTCCAAGGGGATACTCCAACCCTATCTTT
1 TTTT-CATCTTCGAGGATACTCCAACCCCACCAAT-TCCAAGGGGATACTCCAACCCCATCTTT
159348 TCAAAATTTC
Statistics
Matches: 311, Mismatches: 66, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
79 1 0.00
80 79 0.25
81 164 0.53
82 67 0.22
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (81 bp):
TTTTCATCTTCGAGGATACTCCAACCCCACCAATTCCAAGGGGATACTCCAACCCCATCTTTACT
TCTAAAAACATCGAAC
Found at i:159049 original size:161 final size:162
Alignment explanation
Indices: 158842--159340 Score: 547
Period size: 161 Copynumber: 3.1 Consensus size: 162
158832 CTATCTTCAA
* * * *
158842 GGATACT-CATCCTCGCATTTATTTCCAAAAACATTAAATTTTTCATCTTCGGGGGTACTCCAAC
1 GGATACTACAACCCCGCATTTACTTCCAAAAACATTAAATTTTTCATCTTCGGGGATACTCCAAC
* * *
158906 CCCACCAATTCCGAAGGGATACTCCAACCCCATCTTCACTTCTAAAAACACCGAACTTTTCATCT
66 CCCACCAATTCCAAAGGGATACTCCAACCCCATCTTTACTTCTAAAAACATCGAACTTTTCATCT
*
158971 TCGAGGATACTCCAACCCCACCATTTTCAAGG
131 TCGAGGATACTCCAACCCCACCATTTCCAAGG
* * * * * *
159003 GGCTACT-CAACCCCGCATTTACTTCCAAAAACATCAAACTTTTCATCTTCGAGGATACTCTAGC
1 GGATACTACAACCCCGCATTTACTTCCAAAAACATTAAATTTTTCATCTTCGGGGATACTCCAAC
* * * * * *
159067 CCCACCATTTCTAAGGGGATACTCCAACCCCATCTTTACTTTTAAAACCATTGAACTTTTCATCT
66 CCCACCAATTCCAAAGGGATACTCCAACCCCATCTTTACTTCTAAAAACATCGAACTTTTCATC-
* * *
159132 TTAGGGGATACTCCAACCCCAACATTTCCAAGG
130 TTCGAGGATACTCCAACCCCACCATTTCCAAGG
* * * * * * * *
159165 GGATACTATAACCCCGTC-TTTGCATCCAGAAACATTGAATTTTTCATCTACGGAGTTACTCCAA
1 GGATACTACAACCCCG-CATTTACTTCCAAAAACATTAAATTTTTCATCTTCGGGGATACTCCAA
* * * * * *
159229 CCCCACCATTTCTAAAAGGATACTCTAACCCCATCTTTACTTCTAAAAATATC-AAATTTTCCAT
65 CCCCACCAATTCCAAAGGGATACTCCAACCCCATCTTTACTTCTAAAAACATCGAACTTTT-CAT
* ** * * *
159293 CTTCTAGGATGTTCCAACCCTACTATCTCCAAGG
129 CTTCGAGGATACTCCAACCCCACCATTTCCAAGG
*
159327 GGATACTCCAACCC
1 GGATACTACAACCC
159341 TATCTTTTCA
Statistics
Matches: 278, Mismatches: 56, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
161 109 0.39
162 77 0.28
163 91 0.33
164 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (162 bp):
GGATACTACAACCCCGCATTTACTTCCAAAAACATTAAATTTTTCATCTTCGGGGATACTCCAAC
CCCACCAATTCCAAAGGGATACTCCAACCCCATCTTTACTTCTAAAAACATCGAACTTTTCATCT
TCGAGGATACTCCAACCCCACCATTTCCAAGG
Found at i:160795 original size:16 final size:16
Alignment explanation
Indices: 160774--160805 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
160764 ACTGTCCTTG
160774 CCAAATAGAGGAACGA
1 CCAAATAGAGGAACGA
*
160790 CCAAATGGAGGAACGA
1 CCAAATAGAGGAACGA
160806 TTCAGATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.28, T:0.06
Consensus pattern (16 bp):
CCAAATAGAGGAACGA
Found at i:170753 original size:62 final size:62
Alignment explanation
Indices: 170687--170815 Score: 249
Period size: 62 Copynumber: 2.1 Consensus size: 62
170677 GTTTTTTCTC
*
170687 TTTTTAAAGCCCACATAAACTGGTGGCACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATGT
1 TTTTTAAAACCCACATAAACTGGTGGCACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATGT
170749 TTTTTAAAACCCACATAAACTGGTGGCACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATGT
1 TTTTTAAAACCCACATAAACTGGTGGCACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATGT
170811 TTTTT
1 TTTTT
170816 CCTTTTAAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (62 bp):
TTTTTAAAACCCACATAAACTGGTGGCACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATGT
Found at i:170841 original size:68 final size:68
Alignment explanation
Indices: 170643--171004 Score: 332
Period size: 69 Copynumber: 5.4 Consensus size: 68
170633 AAGCTGATGA
* * * * *
170643 CACCTTTTATCCTTTT-CTCCTTAAAGAGCAAGATGTTTTTTCTCTTTTTAAAGCCCACATAAAC
1 CACCTTTT-TCCTTTTAGTCCTCAAAAAGCAGGATGTTTTTTC-C-TTTTAAAGCCCACACAAAC
170707 TGGTGG
63 TGGTGG
* *
170713 CACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATG----TT--TTTTAAAACCCACATAAACTGG
1 CACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATGTTTTTTCCTTTTAAAGCCCACACAAACTGG
170772 TGG
66 TGG
* *
170775 CACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATGTTTTTTCCTTTTAAAACCCACACAAAATGG
1 CACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATGTTTTTTCCTTTTAAAGCCCACACAAACTGG
170840 TGG
66 TGG
* ** * * * * * **
170843 CACC-TTTTCCCTAAAGTCTTTAAAGAGCGAGACAT-CTTTTTCCTTTTAAAGCCCACACATCCT
1 CACCTTTTTCCTTTTAGTCCTCAAAAAGC-AG-GATGTTTTTTCCTTTTAAAGCCCACACAAACT
*
170906 GGTAG
64 GGTGG
* * ** * *
170911 TA-CTTTTTCCCTTTTAGTCC-CTAAAAAGTAGGACATCTTTTTCCTTTTAAAGCCTACACAAGC
1 CACCTTTTT-CCTTTTAGTCCTC-AAAAAGCAGGATGT-TTTTTCCTTTTAAAGCCCACACAAAC
170974 TGGTGG
63 TGGTGG
*
170980 CACCTTTTACCTTTTAGTCCTCAAA
1 CACCTTTTTCCTTTTAGTCCTCAAA
171005 GAGTAGGACA
Statistics
Matches: 239, Mismatches: 37, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
62 59 0.25
66 4 0.02
67 20 0.08
68 63 0.26
69 64 0.27
70 29 0.12
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (68 bp):
CACCTTTTTCCTTTTAGTCCTCAAAAAGCAGGATGTTTTTTCCTTTTAAAGCCCACACAAACTGG
TGG
Found at i:172065 original size:20 final size:20
Alignment explanation
Indices: 172042--172093 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
172032 CAACAAGTTG
* *
172042 ATGTATAGATACATAAGTGA
1 ATGTATTGATACATAAGTAA
172062 ATGTATTGATACATAAGTAA
1 ATGTATTGATACATAAGTAA
172082 ATGTATTGATAC
1 ATGTATTGATAC
172094 TAGACCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (20 bp):
ATGTATTGATACATAAGTAA
Found at i:175025 original size:80 final size:80
Alignment explanation
Indices: 174637--175322 Score: 661
Period size: 81 Copynumber: 8.5 Consensus size: 80
174627 AATATTAAAA
* * * ** * *
174637 AGGGATACTCTAACCCCATCATCTCCGAGAGGATACTCCAACC-CATCTTTACTTCCAAAAACTT
1 AGGGATACTCCAACCCCACCATTTTTGAG-GGATACTCCAACCTCGTCTTTACTTCCAAAAACAT
** *
174701 TGAA-TTTCCCA-CTTTT
65 CAAACTTT-TCATC-TTT
* * ** *
174717 AGGGATACTTCAACCCTACCATTTTTGAACAGCTACTCCAACC-C-TACCTTTACTTCCAAAAAC
1 AGGGATACTCCAACCCCACCATTTTTG-AGGGATACTCCAACCTCGT--CTTTACTTCCAAAAAC
174780 ATCAAACTTTTCATCTTT
63 ATCAAACTTTTCATCTTT
* * * * * ** * *
174798 AGGGATAATCCAACCCTACCATTTCTGAAGGCAAACTATAACCTTGTCTTTACGTCCAAAAACAT
1 AGGGATACTCCAACCCCACCATTTTTG-AGGGATACTCCAACCTCGTCTTTACTTCCAAAAACAT
* * *
174863 CGAATTTTTCATCTTC
65 CAAACTTTTCATCTTT
* *
174879 AGGGATACTCCAACCCCACCATTTCTGAGGGAATACTCCAACCTTGTCTTTACTTCCAAAAACAT
1 AGGGATACTCCAACCCCACCATTTTTGAGGG-ATACTCCAACCTCGTCTTTACTTCCAAAAACAT
*
174944 CAAACTATTCATCTTT
65 CAAACTTTTCATCTTT
* * * * *
174960 GGGGATACTCCAACCCCATCATTTTTTAGGGTTACTCCAACCTCGTCTTTACTTCTAAAAACATC
1 AGGGATACTCCAACCCCACCATTTTTGAGGGATACTCCAACCTCGTCTTTACTTCCAAAAACATC
175025 AAACTTTTCATCTTT
66 AAACTTTTCATCTTT
* * *
175040 GGGGATACTCCAACCCCATCATTTTTGAGGGTTACTCCAACCTCGTCTTTACTTCCAAAAACATC
1 AGGGATACTCCAACCCCACCATTTTTGAGGGATACTCCAACCTCGTCTTTACTTCCAAAAACATC
175105 AAA-TTTTCCATCTTT
66 AAACTTTT-CATCTTT
* * * * * *
175120 AGGGATACTCTAACCCTACCATTTCTGAAGGGATACTACAACC-CTATCTTTACTTCCAAAAACT
1 AGGGATACTCCAACCCCACCATTTTTG-AGGGATACTCCAACCTC-GTCTTTACTTCCAAAAACA
*
175184 TCAAA-TTTTCCATCCTT
64 TCAAACTTTT-CATCTTT
* * * * * * *
175201 AAGGATACTCCAACCCCACCAATTCTGAGGGGATACTCCAACCCCGTCTTTACATCTAAAAATAT
1 AGGGATACTCCAACCCCACCATTTTTGA-GGGATACTCCAACCTCGTCTTTACTTCCAAAAACAT
**
175266 CAAA-TTTTCCATCTAC
65 CAAACTTTT-CATCTTT
* * *
175282 AAGGATACTACAACCCCACCATTTTGGAGGGGATACTCCAA
1 AGGGATACTCCAACCCCACCATTTTTGA-GGGATACTCCAA
175323 TCCCATTTTT
Statistics
Matches: 516, Mismatches: 77, Indels: 25
0.83 0.12 0.04
Matches are distributed among these distances:
79 5 0.01
80 177 0.34
81 328 0.64
82 5 0.01
83 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (80 bp):
AGGGATACTCCAACCCCACCATTTTTGAGGGATACTCCAACCTCGTCTTTACTTCCAAAAACATC
AAACTTTTCATCTTT
Found at i:175290 original size:322 final size:323
Alignment explanation
Indices: 174667--175377 Score: 812
Period size: 322 Copynumber: 2.2 Consensus size: 323
174657 ATCTCCGAGA
* * ** * * ** *
174667 GGATACTCCAA-CCCATCTTTACTTCCAAAAACTTTGAATTTCCCA-CTTTTAGGGATACTTCAA
1 GGATACTCCAATCCCATCTTTACTTCTAAAAACATCAAATTTTCTATCTTCGA-GGATACTCCAA
* * ** *
174730 CCCTACCATTTTTGAACAGCTACTCCAACC-C-TACCTTTACTTCCAAAAACATCAAACTTTTCA
65 CCCCATCATTTTTG-AGGGTTACTCCAACCTCGT--CTTTACTTCCAAAAACATCAAACTTTTCA
* * *
174793 TCTTTAGGGATAATCCAACCCTACCATTTCTGAAGGCAAACTATAACCTTGTCTTTACGTCCAAA
127 TCTTTAGGGATAATCCAACCCTACCATTTCTGAAGGCAAACTACAACCCTATCTTTACGTCCAAA
* * * * *
174858 AACATCGAATTTTTCATCTTCAGGGATACTCCAACCCCACCATTTCTGAGGGAATACTCCAACCT
192 AACATCAAATTTTCCATCTTCAAGGATACTCCAACCCCACCAATTCTGAGGGAATACTCCAACCC
* * **** * * **
174923 TGTCTTTACTTCCAAAAACATCAAACTATTCATCTTTGGGGATACTCCAACCCCATCATTTTTTA
257 CGTCTTTACATCCAAAAACATCAAACTATTCATCTACAAGGATACTACAACCCCACCATTTTGGA
174988 -G
322 GG
* * * *
174989 GGTTACTCCAA-CCTCGTCTTTACTTCTAAAAACATCAAACTTTTC-ATCTTTGGGGATACTCCA
1 GGATACTCCAATCC-CATCTTTACTTCTAAAAACATCAAA-TTTTCTATCTTCGAGGATACTCCA
175052 ACCCCATCATTTTTGAGGGTTACTCCAACCTCGTCTTTACTTCCAAAAACATCAAA-TTTTCCAT
64 ACCCCATCATTTTTGAGGGTTACTCCAACCTCGTCTTTACTTCCAAAAACATCAAACTTTT-CAT
* * * * *
175116 CTTTAGGGATACTCTAACCCTACCATTTCTGAAGGGATACTACAACCCTATCTTTACTTCCAAAA
128 CTTTAGGGATAATCCAACCCTACCATTTCTGAAGGCAAACTACAACCCTATCTTTACGTCCAAAA
* *
175181 ACTTCAAATTTTCCATCCTT-AAGGATACTCCAACCCCACCAATTCTGAGGGGATACTCCAACCC
193 ACATCAAATTTTCCAT-CTTCAAGGATACTCCAACCCCACCAATTCTGAGGGAATACTCCAACCC
* * *
175245 CGTCTTTACATCTAAAAATATCAAA-TTTTCCATCTACAAGGATACTACAACCCCACCATTTTGG
257 CGTCTTTACATCCAAAAACATCAAACTATT-CATCTACAAGGATACTACAACCCCACCATTTTGG
175309 AGG
321 AGG
* *** *
175312 GGATACTCCAATCCCATTTTTACTTCTAAAGGTATCAAATTTTCTATCTTCGAGGATACTCTAAC
1 GGATACTCCAATCCCATCTTTACTTCTAAAAACATCAAATTTTCTATCTTCGAGGATACTCCAAC
175377 C
66 C
175378 TTATTATCTC
Statistics
Matches: 326, Mismatches: 52, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
321 7 0.02
322 212 0.65
323 96 0.29
324 11 0.03
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (323 bp):
GGATACTCCAATCCCATCTTTACTTCTAAAAACATCAAATTTTCTATCTTCGAGGATACTCCAAC
CCCATCATTTTTGAGGGTTACTCCAACCTCGTCTTTACTTCCAAAAACATCAAACTTTTCATCTT
TAGGGATAATCCAACCCTACCATTTCTGAAGGCAAACTACAACCCTATCTTTACGTCCAAAAACA
TCAAATTTTCCATCTTCAAGGATACTCCAACCCCACCAATTCTGAGGGAATACTCCAACCCCGTC
TTTACATCCAAAAACATCAAACTATTCATCTACAAGGATACTACAACCCCACCATTTTGGAGG
Found at i:175352 original size:162 final size:158
Alignment explanation
Indices: 174637--175405 Score: 606
Period size: 162 Copynumber: 4.8 Consensus size: 158
174627 AATATTAAAA
* ** *
174637 AGGGATACTCTAACCCCATCATCTCCGAGAGGATACTCCAACCCATCTTTACTTCCAAAAACT-T
1 AGGGATACTC-AACCCCACCAT-TTTGAG-GGATACTCCAACCCATCTTTACTTCTAAAAA-TAT
** * * * * * * *** *
174701 TGAATTTCCCA-CTTTTAGGGATACTTCAACCCTACCATTTTTGAACAGCTACTCCAACC-C-TA
62 CAAATTTTCCATCCTTGA-GGATACTCCAACCCCACCATTTCTGAGGGGATACTCCAACCTCGT-
174763 CCTTTACTTCCAAAAACATCAAACTTTT-CATCTTT
125 -CTTTACTTCCAAAAACATCAAA-TTTTCCATCTTT
* * * * ** ** * * *
174798 AGGGATAATCCAACCCTACCATTTCTGAAGGCAAACTATAACCTTGTCTTTACGTCCAAAAACAT
1 AGGGATACT-CAACCCCACCATTT-TG-AGGGATACTCCAACC-CATCTTTACTTCTAAAAATAT
* * * * *
174863 CGAATTTTTCAT-CTTCAGGGATACTCCAACCCCACCATTTCTGAGGGAATACTCCAACCTTGTC
62 CAAATTTTCCATCCTTGA-GGATACTCCAACCCCACCATTTCTGAGGGGATACTCCAACCTCGTC
*
174927 TTTACTTCCAAAAACATCAAACTATT-CATCTTT
126 TTTACTTCCAAAAACATCAAA-TTTTCCATCTTT
* * * * * *
174960 GGGGATACTCCAACCCCATCATTTTTTAGGGTTACTCCAACCTCGTCTTTACTTCTAAAAACATC
1 AGGGATACT-CAACCCCACCA-TTTTGAGGGATACTCCAACC-CATCTTTACTTCTAAAAATATC
* * * * *
175025 AAACTTTT-CATCTTTGGGGATACTCCAACCCCATCATTTTTGA-GGGTTACTCCAACCTCGTCT
63 AAA-TTTTCCATCCTTGAGGATACTCCAACCCCACCATTTCTGAGGGGATACTCCAACCTCGTCT
175088 TTACTTCCAAAAACATCAAATTTTCCATCTTT
127 TTACTTCCAAAAACATCAAATTTTCCATCTTT
* * *
175120 AGGGATACTCTAACCCTACCATTTCTGAAGGGATACTACAACCCTATCTTTACTTCCAAAAACT-
1 AGGGATACTC-AACCCCACCATTT-TG-AGGGATACTCCAACCC-ATCTTTACTTCTAAAAA-TA
* * *
175184 TCAAATTTTCCATCCTTAAGGATACTCCAACCCCACCAATTCTGAGGGGATACTCCAACCCCGTC
61 TCAAATTTTCCATCCTTGAGGATACTCCAACCCCACCATTTCTGAGGGGATACTCCAACCTCGTC
* * * **
175249 TTTACATCTAAAAATATCAAATTTTCCATCTAC
126 TTTACTTCCAAAAACATCAAATTTTCCATCTTT
* * **
175282 AAGGATACTACAACCCCACCATTTTGGAGGGGATACTCCAATCCCATTTTTACTTCTAAAGGTAT
1 AGGGATACT-CAACCCCACCATTTT-GA-GGGATACTCCAA-CCCATCTTTACTTCTAAAAATAT
* * ** ** * *
175347 CAAATTTTCTAT-CTTCGAGGATACTCTAACCTTATTATCTCCGAGGGGATACTCCAACC
62 CAAATTTTCCATCCTT-GAGGATACTCCAACCCCACCATTTCTGAGGGGATACTCCAACC
175406 ACGCTTCTTT
Statistics
Matches: 493, Mismatches: 90, Indels: 49
0.78 0.14 0.08
Matches are distributed among these distances:
159 7 0.01
160 67 0.14
161 154 0.31
162 257 0.52
163 7 0.01
164 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (158 bp):
AGGGATACTCAACCCCACCATTTTGAGGGATACTCCAACCCATCTTTACTTCTAAAAATATCAAA
TTTTCCATCCTTGAGGATACTCCAACCCCACCATTTCTGAGGGGATACTCCAACCTCGTCTTTAC
TTCCAAAAACATCAAATTTTCCATCTTT
Found at i:175393 original size:81 final size:81
Alignment explanation
Indices: 174844--175405 Score: 296
Period size: 81 Copynumber: 7.0 Consensus size: 81
174834 TATAACCTTG
* * * * * * * * * *
174844 TCTTTACGTCCAAAAACATCGAATTTTTCATCTTCAGGGATACTCCAACCCCACCATTTCTGAGG
1 TCTTTACATCTAAAAATATCAAATTTTCCATCTACAAGGATACTACAACCCCACCATCTCCGAGG
* ***
174909 GAATACTCCAACCTTG
66 GGATACTCCAACCCCA
* * * * **** * * * ***
174925 TCTTTACTTCCAAAAACATCAAACTATT-CATCTTTGGGGATACTCCAACCCCATCATTTTTTA-
1 TCTTTACATCTAAAAATATCAAA-TTTTCCATCTACAAGGATACTACAACCCCACCATCTCCGAG
* * *
174988 GGGTTACTCCAACCTCG
65 GGGATACTCCAACCCCA
* * **** * * * **
175005 TCTTTACTTCTAAAAACATCAAACTTTT-CATCTTTGGGGATACTCCAACCCCATCATTTTTGA-
1 TCTTTACATCTAAAAATATCAAA-TTTTCCATCTACAAGGATACTACAACCCCACCATCTCCGAG
* * *
175068 GGGTTACTCCAACCTCG
65 GGGATACTCCAACCCCA
* * * ** * * * * *
175085 TCTTTACTTCCAAAAACATCAAATTTTCCATCTTTAGGGATACT-CTAACCCTACCATTTCTGAA
1 TCTTTACATCTAAAAATATCAAATTTTCCATCTACAAGGATACTAC-AACCCCACCATCTCCGAG
* *
175149 GGGATACTACAACCCTA
65 GGGATACTCCAACCCCA
* * * * *
175166 TCTTTACTTCCAAAAACT-TCAAATTTTCCATCCT-TAAGGATACTCCAACCCCACCAAT-TCTG
1 TCTTTACATCTAAAAA-TATCAAATTTTCCAT-CTACAAGGATACTACAACCCCACC-ATCTCCG
*
175228 AGGGGATACTCCAACCCCG
63 AGGGGATACTCCAACCCCA
* **
175247 TCTTTACATCTAAAAATATCAAATTTTCCATCTACAAGGATACTACAACCCCACCATTTTGGAGG
1 TCTTTACATCTAAAAATATCAAATTTTCCATCTACAAGGATACTACAACCCCACCATCTCCGAGG
*
175312 GGATACTCCAATCCCA
66 GGATACTCCAACCCCA
* * ** * * * ** **
175328 TTTTTACTTCTAAAGGTATCAAATTTTCTATCTTCGAGGATACT-CTAACCTTATTATCTCCGAG
1 TCTTTACATCTAAAAATATCAAATTTTCCATCTACAAGGATACTAC-AACCCCACCATCTCCGAG
175392 GGGATACTCCAACC
65 GGGATACTCCAACC
175406 ACGCTTCTTT
Statistics
Matches: 415, Mismatches: 54, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
79 5 0.01
80 148 0.36
81 254 0.61
82 8 0.02
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (81 bp):
TCTTTACATCTAAAAATATCAAATTTTCCATCTACAAGGATACTACAACCCCACCATCTCCGAGG
GGATACTCCAACCCCA
Found at i:177870 original size:13 final size:13
Alignment explanation
Indices: 177852--177876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
177842 GCCAAGAAAA
177852 TGTATCGATACAT
1 TGTATCGATACAT
177865 TGTATCGATACA
1 TGTATCGATACA
177877 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:177929 original size:52 final size:51
Alignment explanation
Indices: 177865--178013 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 51
177855 ATCGATACAT
**
177865 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGAT-AATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
177917 TGTATCGATACACT-ATGAAATGTATCGATACATACAGGCAAATATGCCTAGA
1 TGTATCGATACACTGAT--AATGTATCGATACATGCAGGCAAATTTGCCCAGA
177969 TGTATCGATACACCATGA-AATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACA-C-TGATAATGTATCGATACATGCAGGCAAATTT
178014 TCATATTTCG
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
51 2 0.02
52 80 0.94
53 1 0.01
54 1 0.01
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (51 bp):
TGTATCGATACACTGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:191796 original size:34 final size:30
Alignment explanation
Indices: 191773--191888 Score: 81
Period size: 33 Copynumber: 3.5 Consensus size: 30
191763 GAAGAAGAAG
191773 AAAAAAAAACAAAATGAAAAAAAAAACAACAA
1 AAAAAAAAACAAAATGAAAAAAAAAA-AA-AA
191805 ACAAAAAAAA-AAGAATACGAAAAAAAACAAACAAA
1 A-AAAAAAAACAA-AAT--GAAAAAAAA-AAA-AAA
* *
191840 CAAAAAAAAAGAAAAAGAAAAAAAACAACAAACA
1 -AAAAAAAAACAAAATGAAAAAAAA-AA-AAA-A
*
191874 AACAAAAAAAAAAAA
1 AA-AAAAAAACAAAA
191889 CAACAACAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
32 3 0.04
33 27 0.38
34 13 0.18
35 22 0.31
36 6 0.08
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (30 bp):
AAAAAAAAACAAAATGAAAAAAAAAAAAAA
Found at i:191811 original size:33 final size:33
Alignment explanation
Indices: 191774--191888 Score: 144
Period size: 35 Copynumber: 3.4 Consensus size: 33
191764 AAGAAGAAGA
191774 AAAAAAAACAAAATGAAAAAAAAAAC-AACAAAC
1 AAAAAAAA-AAAATGAAAAAAAAAACAAACAAAC
*
191807 AAAAAAAAAAGAAT-ACGAAAAAAAACAAACAAAC
1 AAAAAAAAAA-AATGA-AAAAAAAAACAAACAAAC
*
191841 AAAAAAAAAGAAAAAGAAAAAAAACAACAAACAAAC
1 -AAAAAAAA-AAAATGAAAAAAAA-AACAAACAAAC
191877 AAAAAAAAAAAA
1 AAAAAAAAAAAA
191889 CAACAACAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
32 3 0.04
33 20 0.28
34 11 0.15
35 24 0.33
36 14 0.19
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.02
Consensus pattern (33 bp):
AAAAAAAAAAAATGAAAAAAAAAACAAACAAAC
Found at i:191828 original size:50 final size:50
Alignment explanation
Indices: 191740--191835 Score: 142
Period size: 50 Copynumber: 1.9 Consensus size: 50
191730 TGTCCTCCAC
*
191740 AAAAAAAAACAAACAAACAAAAAGAAGAAGAAGAAAAAAAAACAAAATGA
1 AAAAAAAAACAAACAAACAAAAAGAAAAAGAAGAAAAAAAAACAAAATGA
*
191790 AAAAAAAAAC-AACAAACAAAAA-AAAAAGAATACGAAAAAAAACAAA
1 AAAAAAAAACAAACAAACAAAAAGAAAAAGAAGA--AAAAAAAACAAA
191836 CAAACAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
48 8 0.19
49 12 0.29
50 22 0.52
ACGTcount: A:0.81, C:0.09, G:0.07, T:0.02
Consensus pattern (50 bp):
AAAAAAAAACAAACAAACAAAAAGAAAAAGAAGAAAAAAAAACAAAATGA
Found at i:191881 original size:83 final size:83
Alignment explanation
Indices: 191741--191901 Score: 211
Period size: 83 Copynumber: 1.9 Consensus size: 83
191731 GTCCTCCACA
* * * *
191741 AAAAAAAACAAACAAACAAAAAGAAGAAGAAGAAAAAAAAACAAAATGAAAAAAAAAACAACAAA
1 AAAAAAAACAAACAAACAAAAAAAAGAAAAAGAAAAAAAAACAAAA-GAAAAAAAAAAAAAAAAA
191806 CAA-AAAAAAAAGAATACG
65 CAACAAAAAAAAGAATACG
*
191824 AAAAAAAACAAACAAACAAAAAAAAAGAAAAAG-AAAAAAAACAACAA-ACAAACAAAAAAAAAA
1 AAAAAAAACAAACAAAC-AAAAAAAAGAAAAAGAAAAAAAAACAA-AAGA-AAAAAAAAAAAAAA
*
191887 AACAACAACAAAAAG
63 AACAACAAAAAAAAG
191902 GGTCCGGATG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
82 1 0.01
83 44 0.65
84 23 0.34
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.01
Consensus pattern (83 bp):
AAAAAAAACAAACAAACAAAAAAAAGAAAAAGAAAAAAAAACAAAAGAAAAAAAAAAAAAAAAAC
AACAAAAAAAAGAATACG
Found at i:191900 original size:1 final size:1
Alignment explanation
Indices: 191740--191888 Score: 64
Period size: 1 Copynumber: 149.0 Consensus size: 1
191730 TGTCCTCCAC
* * * * * * * * ** * *
191740 AAAAAAAAACAAACAAACAAAAAGAAGAAGAAGAAAAAAAAACAAAATGAAAAAAAAAACAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * ** * * * * * * *
191805 ACAAAAAAAAAAGAATACGAAAAAAAACAAACAAACAAAAAAAAAGAAAAAGAAAAAAAACAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
191870 AACAAACAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAA
191889 CAACAACAAA
Statistics
Matches: 98, Mismatches: 50, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 98 1.00
ACGTcount: A:0.83, C:0.10, G:0.06, T:0.01
Consensus pattern (1 bp):
A
Found at i:191900 original size:36 final size:33
Alignment explanation
Indices: 191740--191900 Score: 139
Period size: 34 Copynumber: 4.7 Consensus size: 33
191730 TGTCCTCCAC
* * * *
191740 AAAAAAAAACAAACAAACAAAAAGAAGA-AGAAGA
1 AAAAAAAAAAAAACAAAAAAAAACAA-ACA-AACA
191774 AAAAAAAACAAAATGA-AAAAAAAAAC-AACAAACA
1 AAAAAAAA-AAAA--ACAAAAAAAAACAAACAAACA
* *
191808 AAAAAAAAAGAATACGAAAAAAAACAAACAAACA
1 AAAAAAAAA-AAAACAAAAAAAAACAAACAAACA
*
191842 AAAAAAAAGAAAAAGAAAAAAAACAACAAACAAACA
1 AAAAAAAA-AAAAA-CAAAAAAA-AACAAACAAACA
*
191878 AAAAAAAAAAACAACAACAAAAA
1 AAAAAAAAAAA-AACAAAAAAAA
191901 GGGTCCGGAT
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
32 1 0.01
33 10 0.10
34 42 0.40
35 21 0.20
36 30 0.29
37 1 0.01
ACGTcount: A:0.82, C:0.11, G:0.06, T:0.01
Consensus pattern (33 bp):
AAAAAAAAAAAAACAAAAAAAAACAAACAAACA
Found at i:193413 original size:28 final size:28
Alignment explanation
Indices: 193344--193610 Score: 329
Period size: 28 Copynumber: 9.4 Consensus size: 28
193334 CACCTTTTCC
* * *
193344 AAAGCCCACAAGTCCGTGGCATCCTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC-TTCA
*
193373 AAAGCCCACAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
193401 AAAGCCCATAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
*
193431 AAAGCCCACAAGTCAGTGGCAACCTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
*
193459 AAAGCCCACAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
193487 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
193515 AAAGCACACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
*
193544 AAAGCCCATAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
193572 AAAGCACACAAGTCGGT-GCAACCCTATCA
1 AAAGCCCACAAGTCAGTGGCAA-CCT-TCA
193601 AAAGCCCACA
1 AAAGCCCACA
193611 TAAGTTGGTG
Statistics
Matches: 207, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.02
28 122 0.59
29 56 0.27
30 25 0.12
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:193482 original size:86 final size:85
Alignment explanation
Indices: 193334--193610 Score: 360
Period size: 86 Copynumber: 3.2 Consensus size: 85
193324 AGACATTCCT
* * *
193334 CACCTTTTCCAAAGCCCACAAGTCCGTGGCATCCTTTCCAAAGCCCACAAGTTAGTGGCAACCTT
1 CACCCTTTCAAAAGCCCACAAGTCAGTGGCATCC-TTCCAAAGCCCACAAGTTAGTGGCAACCTT
*
193399 CAAAAGCCCATAAGTCAGTGG
65 CAAAAGCCCACAAGTCAGTGG
* *
193420 CACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCCAAAGCCCACAAGTTAGTGGCAACCTT
1 CACCC-TTTCAAAAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCACAAGTTAGTGGCAACCTT
193485 CAAAAGCCCACAAGTCAGTGG
65 CAAAAGCCCACAAGTCAGTGG
* * * * * * *
193506 CAACC-TTCAAAAGCACACAAGTCAGTGGTATCTTTTCAAAAGCCCATAAGTCAGTGGCAACCTT
1 CACCCTTTCAAAAGCCCACAAGTCAGTGGCATC-CTTCCAAAGCCCACAAGTTAGTGGCAACCTT
* *
193570 CAAAAGCACACAAGTCGGT-G
65 CAAAAGCCCACAAGTCAGTGG
*
193590 CAACCCTATCAAAAGCCCACA
1 C-ACCCTTTCAAAAGCCCACA
193611 TAAGTTGGTG
Statistics
Matches: 169, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
84 25 0.15
85 47 0.28
86 70 0.41
87 27 0.16
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.19
Consensus pattern (85 bp):
CACCCTTTCAAAAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCACAAGTTAGTGGCAACCTTC
AAAAGCCCACAAGTCAGTGG
Found at i:193569 original size:57 final size:57
Alignment explanation
Indices: 193344--193585 Score: 333
Period size: 57 Copynumber: 4.2 Consensus size: 57
193334 CACCTTTTCC
* * * *
193344 AAAGCCCACAAGTCCGTGGCATCCTTTCCAAAGCCCACAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
193401 AAAGCCCATAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
193459 AAAGCCCACAAGTTAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
193515 AAAGCACACAAGTCAGTGGTATCTTTTCAAAAGCCCATAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA
*
193572 AAAGCACACAAGTC
1 AAAGCCCACAAGTC
193586 GGTGCAACCC
Statistics
Matches: 165, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
56 49 0.30
57 65 0.39
58 51 0.31
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:193749 original size:49 final size:49
Alignment explanation
Indices: 193627--194079 Score: 573
Period size: 49 Copynumber: 9.0 Consensus size: 49
193617 GGTGGCATCT
* *
193627 TCTTCTAAGTCCAATATTGCTGGCCTTGAATTAGCATATTGGCACCTCTGTCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C-CT-TCA
* *
193680 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
193729 TCTTTAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCA
* * *
193781 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
193830 TCTTTAAGTCCAGTATCGTTGGCCTTGAATCAACATATTGGCACCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCA
* *
193882 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
193931 TCGTTAAGTCCAACATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCA
* * * *
193983 TATTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
*
194032 TCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
194080 GTCATCTTTG
Statistics
Matches: 348, Mismatches: 43, Indels: 22
0.84 0.10 0.05
Matches are distributed among these distances:
49 175 0.50
50 5 0.01
51 4 0.01
52 160 0.46
53 4 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
Found at i:193752 original size:101 final size:101
Alignment explanation
Indices: 193627--194088 Score: 753
Period size: 101 Copynumber: 4.6 Consensus size: 101
193617 GGTGGCATCT
* * *
193627 TCTTCTAAGTCCAATATTGCTGGCCTTGAATTAGCATATTGGCACCTCTGTCATCTTTAAGTCCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCA
193692 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
65 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
193729 TCTTTAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAA
*
193794 TGTCGCTGGCCTTGAATCAACACATTGGCACCTTCA
66 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
193830 TCTTTAAGTCCAGTATCGTTGGCCTTGAATCAACATATTGGCACCTTTGTCATCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAA
193895 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
66 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
193931 TCGTTAAGTCCAACATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCATATTTAAGTCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAA
*
193996 TGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCA
66 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
194032 TCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTT
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
194089 GTGGGGACGA
Statistics
Matches: 332, Mismatches: 28, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
101 328 0.99
102 4 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (101 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAA
TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:198192 original size:79 final size:79
Alignment explanation
Indices: 198102--198696 Score: 689
Period size: 79 Copynumber: 7.5 Consensus size: 79
198092 AAGCTTAATA
* * * * * *
198102 TTTTGGAAATAAAATCGGGGTTGGAGTGTCTCATCAAAAATAACGGGGTTAGAGTATCCCCGATT
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATT
198167 GTGAAAAATCAGTG
66 GTGAAAAATCAGTG
* * * *
198181 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTCGAAGTATCCCCGATT
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATT
* *
198246 ATGAAAAATCAGTA
66 GTGAAAAATCAGTG
* * * * * *
198260 TTTTGGAAATAAAATTGGGATTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCTTCGATT
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATT
**
198325 GTGAAAAATTGGTG
66 GTGAAAAATCAGTG
* * * * *
198339 TTTT-AGAAATAAAAACAGTGTTGGAGTATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGAT
1 TTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGAT
**
198403 TGT-AGAAAATTGGTG
65 TGTGA-AAAATCAGTG
* ** * *
198418 TTTTGAAAATAAAATCGAGGTTGGAGTATCTTCTCAGAAATAACGGGGTTGGAGTATCTTCGATT
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATT
* *
198483 GTGAAAAATCGGTA
66 GTGAAAAATCAGTG
* * * *
198497 TTTTAAAAATAAAATCGAGGTTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTCGATT
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATT
*
198562 GT-AATAAATTTA-TG
66 GTGAA-AAA-TCAGTG
* * * *
198576 TTTTGAAAATAAAATC-GGGTTGGAGTATCTCCTCAGAAATAATGGGGTTGGGGTATCCTCGATT
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATT
*
198640 ATGAAAAATC-GATG
66 GTGAAAAATCAG-TG
* *
198654 TTTTGAAAATAAAATCGGGGTTAGAGTATCCCCTCAGAAATAA
1 TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAA
198697 AAACATGAAT
Statistics
Matches: 441, Mismatches: 65, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
77 1 0.00
78 66 0.15
79 371 0.84
80 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (79 bp):
TTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATT
GTGAAAAATCAGTG
Found at i:201122 original size:50 final size:50
Alignment explanation
Indices: 201068--201173 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 50
201058 GATATGCATT
*
201068 GATACATCGAGGTAAAACCTAGAATGTATCAAGACAATGAAGAATGTATC
1 GATACATCGAGGTAAAACCCAGAATGTATCAAGACAATGAAGAATGTATC
** * *
201118 GATACATTTAGGTAAAACCCAGAATGTATCAATACAATGAAGGATGTATC
1 GATACATCGAGGTAAAACCCAGAATGTATCAAGACAATGAAGAATGTATC
201168 GATACA
1 GATACA
201174 AATTGTGAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (50 bp):
GATACATCGAGGTAAAACCCAGAATGTATCAAGACAATGAAGAATGTATC
Found at i:201864 original size:61 final size:61
Alignment explanation
Indices: 201735--202657 Score: 1128
Period size: 61 Copynumber: 15.2 Consensus size: 61
201725 CTACACTTGC
* * * * * * *
201735 GGACTAAAAGGTGCCACCAAC-T-AGTAGGCTTTGAAAGGAAAAGGCGTCATACTCTTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
* * * * * *
201794 AGACTAAAAGGTGCCACCAACTTGTTTGGGCTTTAAAGGGAATAGACGTCCTGCTCTTCGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
* * * * **
201855 GGACTAAAAGGTGCCACCAACTTGTGTAGCCTTTAAAGGGAAAAGAAATCCTGCTCTTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
* * *
201916 GGACTGAAATGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCTGCTCTTTAA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
* * * * * *
201976 AGACAGAAAGGTGCCACCAACTTTTGTGGGCTTTAAAAGGAAAAGACATCTTTCTCTTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
* * * * * * *
202037 GGATTGAAATGTGCCACCAACTTGTGCGAGCTTTAAAAGGAAAA-AGTGTCATGCTCTTCGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA-CGTCCTGCTCTTTGA
* * ** * * * *
202098 GGAATAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAACAAAAAGACATCTTGATCTTGGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
* * * * **
202159 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAATGGCATCCTACTCTTCAA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
* * * *
202220 GGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAA-ACCATCCTACTCTTCGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA-CGTCCTGCTCTTTGA
* * *
202281 GGACTGAAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGGAAAA-AGCATCCTACTCTTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA-CGTCCTGCTCTTTGA
*
202342 AGACTGAAAGGTGCCACCAA-TATGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
1 GGACTGAAAGGTGCCACCAACT-TGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
202403 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-AGCGTCCTGCTCTTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA-CGTCCTGCTCTTTGA
* *
202464 AGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
202525 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-A-GTAACCTGCTCTTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGT--CCTGCTCTTTGA
* * * * * *
202586 GGACTAAAAGGCGCCACCAACTTGTGTGGGGTTTAAAAAGAAAAGACATTCTGCTCTTTGA
1 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
202647 GGACTGAAAGG
1 GGACTGAAAGG
202658 ATAAAAGTTT
Statistics
Matches: 753, Mismatches: 96, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
59 22 0.03
60 57 0.08
61 668 0.89
62 5 0.01
63 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (61 bp):
GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGA
Found at i:211924 original size:21 final size:21
Alignment explanation
Indices: 211877--211931 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
211867 CTACCACTGT
*
211877 TTGTATCGATACATGGTACAA
1 TTGTATCGATACATGATACAA
211898 -TGTATCGATACATGATGA-AA
1 TTGTATCGATACATGAT-ACAA
*
211918 TTGTATCGACACAT
1 TTGTATCGATACAT
211932 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACATGATACAA
Found at i:212478 original size:22 final size:22
Alignment explanation
Indices: 212450--212496 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
212440 AATGAAGTGT
212450 CGAGGAGGGATGACGTAGGTGC
1 CGAGGAGGGATGACGTAGGTGC
212472 CGAGGAGGGATGACGTAGGTGC
1 CGAGGAGGGATGACGTAGGTGC
212494 CGA
1 CGA
212497 TTTGGACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.15, G:0.49, T:0.13
Consensus pattern (22 bp):
CGAGGAGGGATGACGTAGGTGC
Found at i:220635 original size:19 final size:20
Alignment explanation
Indices: 220606--220659 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
220596 ACATTATGCT
* **
220606 TTGTATTGATACATGTTC-A
1 TTGTATCGATACATGGACAA
*
220625 TTGTTTCGATACATGGACAA
1 TTGTATCGATACATGGACAA
220645 TTGTATCGATACATG
1 TTGTATCGATACATG
220660 AGATTAGCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:230532 original size:20 final size:19
Alignment explanation
Indices: 230478--230533 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
230468 AAAACCCTTA
**
230478 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TGTTC
230498 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
230518 AAAGTATCGATACATG
1 AAAGTATCGATACATG
230534 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:230621 original size:13 final size:13
Alignment explanation
Indices: 230603--230628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
230593 TACACAAAGT
230603 ATGTATCGATACA
1 ATGTATCGATACA
230616 ATGTATCGATACA
1 ATGTATCGATACA
230629 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:230626 original size:32 final size:33
Alignment explanation
Indices: 230585--230648 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
230575 TAGCCAAACT
**
230585 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
230617 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
230649 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:234715 original size:15 final size:15
Alignment explanation
Indices: 234695--234725 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
234685 TAAAAATGTC
*
234695 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
234710 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
234725 C
1 C
234726 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:236718 original size:13 final size:13
Alignment explanation
Indices: 236700--236737 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
236690 CATTTTTCTT
236700 TGTATCGATACAA
1 TGTATCGATACAA
*
236713 TGTATCGATACAC
1 TGTATCGATACAA
*
236726 TGTATCCATACA
1 TGTATCGATACA
236738 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:236901 original size:20 final size:20
Alignment explanation
Indices: 236858--236903 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
236848 AAATCTTTTG
236858 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
236879 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
236899 CAAAA
1 CAAAA
236904 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:239306 original size:13 final size:13
Alignment explanation
Indices: 239288--239313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
239278 TACACAAAGT
239288 ATGTATCGATACA
1 ATGTATCGATACA
239301 ATGTATCGATACA
1 ATGTATCGATACA
239314 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:240378 original size:17 final size:17
Alignment explanation
Indices: 240356--240390 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
240346 ATAAAGGATG
240356 ATTTTTATTATATTTTA
1 ATTTTTATTATATTTTA
240373 ATTTTTATTATATTTTA
1 ATTTTTATTATATTTTA
240390 A
1 A
240391 ATTATCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTATTATATTTTA
Found at i:248282 original size:20 final size:20
Alignment explanation
Indices: 248257--248320 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
248247 TTTTCAGAAA
248257 GTATCGATACAACATTCCTT
1 GTATCGATACAACATTCCTT
248277 GTATCGAT---ACA----TT
1 GTATCGATACAACATTCCTT
248290 GTATCGATACAACATTCCTT
1 GTATCGATACAACATTCCTT
248310 GTATCGATACA
1 GTATCGATACA
248321 TTGTATCGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.27
16 3 0.08
17 3 0.08
20 21 0.57
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
GTATCGATACAACATTCCTT
Found at i:248293 original size:13 final size:13
Alignment explanation
Indices: 248275--248336 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
248265 ACAACATTCC
248275 TTGTATCGATACA
1 TTGTATCGATACA
248288 TTGTATCGATACA
1 TTGTATCGATACA
* *
248301 ----A-C-ATTCC
1 TTGTATCGATACA
248308 TTGTATCGATACA
1 TTGTATCGATACA
248321 TTGTATCGATACA
1 TTGTATCGATACA
248334 TTG
1 TTG
248337 GGTACTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 1 0.03
11 1 0.03
12 1 0.03
13 32 0.82
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:248294 original size:33 final size:33
Alignment explanation
Indices: 248257--248333 Score: 154
Period size: 33 Copynumber: 2.3 Consensus size: 33
248247 TTTTCAGAAA
248257 GTATCGATACAACATTCCTTGTATCGATACATT
1 GTATCGATACAACATTCCTTGTATCGATACATT
248290 GTATCGATACAACATTCCTTGTATCGATACATT
1 GTATCGATACAACATTCCTTGTATCGATACATT
248323 GTATCGATACA
1 GTATCGATACA
248334 TTGGGTACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (33 bp):
GTATCGATACAACATTCCTTGTATCGATACATT
Found at i:251127 original size:52 final size:52
Alignment explanation
Indices: 251042--251166 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
251032 ATATGAAAAG
* * *
251042 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTCCATGTATCGATACATTTAATAATGTATCGATACATCTCGGCAAAT
*
251094 TTGCCTCCATGTATCGATACATTTTATAATGTATCGATACATCTCGGCAAAT
1 TTGCCTCCATGTATCGATACATTTAATAATGTATCGATACATCTCGGCAAAT
251146 TTGCCTCCATGTATCGATACA
1 TTGCCTCCATGTATCGATACA
251167 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (52 bp):
TTGCCTCCATGTATCGATACATTTAATAATGTATCGATACATCTCGGCAAAT
Found at i:251179 original size:52 final size:51
Alignment explanation
Indices: 251042--251186 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
251032 ATATGAAAAG
* *
251042 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTCCATGTATCGATACA-TTAATAGTGTATCGATACATCTCGGCAAAT
* *
251094 TTGCCTCCATGTATCGATACATTTTATAATGTATCGATACATCTCGGCAAAT
1 TTGCCTCCATGTATCGATACA-TTAATAGTGTATCGATACATCTCGGCAAAT
*
251146 TTGCCTCCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTCCATGTATCGATACATTA-AT-AGTGTATCGATACA
251187 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (51 bp):
TTGCCTCCATGTATCGATACATTAATAGTGTATCGATACATCTCGGCAAAT
Found at i:251193 original size:13 final size:13
Alignment explanation
Indices: 251175--251199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
251165 CAAAGATCAG
251175 TGTATCGATACAA
1 TGTATCGATACAA
251188 TGTATCGATACA
1 TGTATCGATACA
251200 TTTGAGTAAT
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:251266 original size:19 final size:20
Alignment explanation
Indices: 251242--251293 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
251232 TAGCTTAAAT
251242 TGTATCGATACAACAC-TTA
1 TGTATCGATACAACACTTTA
251261 TGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTTA
*
251281 TTTATCGATACAA
1 TGTATCGATACAA
251294 ATCGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAACACTTTA
Found at i:252108 original size:43 final size:43
Alignment explanation
Indices: 252046--252458 Score: 448
Period size: 49 Copynumber: 9.0 Consensus size: 43
252036 GATGGAAAAT
*
252046 GTGCCAATATGCTGTTTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
252089 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G
252135 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 ---GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* * * * **
252181 GTGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTAAAGAAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAG
252230 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
252273 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-A--A-G
*
252322 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* **
252365 GTGCCAATGTGCTGATTCAAGGCCAGCTACCTTGGACTTAAAGAAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAG
* *
252414 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAG
252458 G
1 G
252459 GTTGCCACCG
Statistics
Matches: 315, Mismatches: 31, Indels: 47
0.80 0.08 0.12
Matches are distributed among these distances:
43 145 0.46
44 10 0.03
45 2 0.01
46 4 0.01
47 2 0.01
48 5 0.02
49 147 0.47
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
Found at i:252144 original size:49 final size:46
Alignment explanation
Indices: 252004--252440 Score: 484
Period size: 43 Copynumber: 9.4 Consensus size: 46
251994 ATGTCAATGC
*
252004 GCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--G---A-GTGCCAATAT
* * *
252056 GCTGTTTCAAGGCCAGCTATATTGGACTT-AA-AG-GTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGTGCCAATAT
252099 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-G--AGTGCCAATAT
* *
252148 GCTGATTCAAGGCCAGCTATATTGGACTT-AA-AG-GTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGTGCCAATAT
* * **
252191 GCTGATTCAAGGCCAACAACATTGGGTTTAAAGAAGAAGGTGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAG-AG-A-GTGCCAATAT
* *
252240 GCTGATTCAAGGCCAGCTATATTGGACTT-AA-AG-GTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGTGCCAATAT
252283 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGGTGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-GA--GTGCCAATAT
* * *
252332 GCTGATTCAAGGCCAGCGATATTGGACTT-AA-AG-GTGCCAATGT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGTGCCAATAT
*
252375 GCTGATTCAAGGCCAGCTACCTTGGACTTAAAGAAGAAGGTGCCAATAT
1 GCTGATTCAAGGCCAGCTACATTGGACTTAAAG-AG-A-GTGCCAATAT
252424 GCTGATTCAAGGCCAGC
1 GCTGATTCAAGGCCAGC
252441 GATATTGGGC
Statistics
Matches: 331, Mismatches: 30, Indels: 51
0.80 0.07 0.12
Matches are distributed among these distances:
43 141 0.43
44 8 0.02
45 2 0.01
46 10 0.03
47 2 0.01
48 7 0.02
49 132 0.40
50 1 0.00
51 2 0.01
52 26 0.08
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (46 bp):
GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAGTGCCAATAT
Found at i:252178 original size:92 final size:92
Alignment explanation
Indices: 251989--252458 Score: 742
Period size: 92 Copynumber: 5.1 Consensus size: 92
251979 AAGATGAGAA
* * * *
251989 AAAGGATGTCAATGCGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
252054 ATGCTGTTTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
*
252085 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
252150 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * ** *
252177 AAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
252242 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
252269 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
252334 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
252361 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACCTTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
252426 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCTATATTGGACTT
252453 AGAAGG
1 A-AAGG
252459 GTTGCCACCG
Statistics
Matches: 351, Mismatches: 22, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
92 300 0.85
93 4 0.01
94 1 0.00
95 41 0.12
96 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:252592 original size:33 final size:33
Alignment explanation
Indices: 252458--252585 Score: 206
Period size: 33 Copynumber: 3.9 Consensus size: 33
252448 GGCTTAGAAG
* *
252458 GGTTGCCACCGACTTATGTGGGCTTTTGAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
252491 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
*
252524 AGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
*
252557 GGTTGCCACCGACTTGT-CGGGCTTT-GAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAAA
252586 GTAAGGTGGC
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 4 0.04
32 7 0.08
33 79 0.88
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAA
Found at i:252675 original size:36 final size:33
Alignment explanation
Indices: 252588--252938 Score: 160
Period size: 33 Copynumber: 10.6 Consensus size: 33
252578 CTTTGAAAGT
* * *
252588 AAGGTGGCACAGAGTCGTGGACTTAAAAGGTAC
1 AAGGTGGCACAGAGTTGTGGACTTAAAAGGAAA
* *
252621 AAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
1 AAGGTGGCACAGAGTTGTGGAC-TTAAAA-GGAAA
* *
252656 AAGAGTGGCACAGAGTTGTGGGCTT-AAACG---
1 AAG-GTGGCACAGAGTTGTGGACTTAAAAGGAAA
* * * *
252686 --GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 AAGGTGGCACAGAGTTGTGGAC-TTAAAAGGAAA
* * * * *
252718 AAGATAGCACGGAGTTGCGGACTTAAAAGGAAC
1 AAGGTGGCACAGAGTTGTGGACTTAAAAGGAAA
* * * * * *
252751 AAGATGCCATAGGGTCGTGGACATAAAAGGAACA
1 AAGGTGGCACAGAGTTGTGGACTTAAAAGGAA-A
* * * ** *
252785 AAGAGTGCCACGGAGTTGTGGGCTTTGAA--AAG
1 AAG-GTGGCACAGAGTTGTGGACTTAAAAGGAAA
* * ** * *
252817 AAGGTGCCACGGAGTCATGGACTTAAAAAGAAC
1 AAGGTGGCACAGAGTTGTGGACTTAAAAGGAAA
* * * * *
252850 AAGGTGCCACGGGGTCGTGGACTTAAATGGAACAA
1 AAGGTGGCACAGAGTTGTGGACTTAAAAGG-A-AA
* * * *
252885 AAAGTGCCACGGAGTTGTGGACTTAGAAGGAAA
1 AAGGTGGCACAGAGTTGTGGACTTAAAAGGAAA
* *
252918 AAGAGTGCCACGGAGTTGTGG
1 AAG-GTGGCACAGAGTTGTGG
252939 GCTTTGAAGA
Statistics
Matches: 246, Mismatches: 55, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
27 17 0.07
28 3 0.01
29 4 0.02
31 20 0.08
32 3 0.01
33 87 0.35
34 46 0.19
35 50 0.20
36 16 0.07
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.18
Consensus pattern (33 bp):
AAGGTGGCACAGAGTTGTGGACTTAAAAGGAAA
Found at i:252701 original size:63 final size:61
Alignment explanation
Indices: 252623--252744 Score: 172
Period size: 63 Copynumber: 2.0 Consensus size: 61
252613 AAAGGTACAA
* * * *
252623 GGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGGCACAGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGACTTTAAAA-AGAAAAAGA-TAGCACAGAGTTGCGGACTTAAACG
* *
252686 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGATAGCACGGAGTTGCGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGATAGCACAGAGTTGCGGACTTAAA
252745 AGGAACAAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 19 0.36
62 8 0.15
63 26 0.49
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (61 bp):
GGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGATAGCACAGAGTTGCGGACTTAAACG
Found at i:252809 original size:102 final size:102
Alignment explanation
Indices: 252687--252935 Score: 310
Period size: 99 Copynumber: 2.5 Consensus size: 102
252677 GCTTAAACGG
*
252687 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGATAG-CACGGAGTTGCGGACTTAAAAGGAAC
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAT-GCCACGGAGTTGCGGACTTAAAAAGAAC
* *
252751 AAGATGCCATAGGGTCGTGGACATAAAAGGAACAAAGA
65 AAGATGCCACAGGGTCGTGGACATAAAAGGAACAAAAA
* * ***
252789 GTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCATGGACTTAAAAAGAACA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGATGCCACGGAGTTGCGGACTTAAAAAGAACA
* * * *
252851 AGGTGCCACGGGGTCGTGGACTTAAATGGAACAAAAA
66 AGATGCCACAGGGTCGTGGACATAAAAGGAACAAAAA
* * *
252888 GTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTG
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGA-TGCCACGGAGTTG
252936 TGGGCTTTGA
Statistics
Matches: 123, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
98 6 0.05
99 76 0.62
101 3 0.02
102 38 0.31
ACGTcount: A:0.35, C:0.15, G:0.33, T:0.18
Consensus pattern (102 bp):
GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGATGCCACGGAGTTGCGGACTTAAAAAGAACA
AGATGCCACAGGGTCGTGGACATAAAAGGAACAAAAA
Found at i:252825 original size:66 final size:67
Alignment explanation
Indices: 252621--253040 Score: 290
Period size: 66 Copynumber: 6.4 Consensus size: 67
252611 TAAAAGGTAC
* * *
252621 AAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA-AAAGAGTGGCACAGAGTTGTGGGC-TT-AA
1 AAGGTGCCACGGAGTCGTGGAC-TTAAAA-GGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
*
252683 -ACG
64 CAAG
* * * * * **
252686 --GGTGCCACGGAGTTGTGGGCTTTAAAAAGAA-AAAGA-TAG-CACGGAGTTGCGGACTTAAAA
1 AAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAAGAGT-GCCACGGAGTTGTGGGCTTTGAA
* *
252746 GGAAC
64 -CAAG
* * *
252751 AAGATGCCATAGG-GTCGTGGACATAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAA-
1 AAGGTGCCA-CGGAGTCGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAC
252814 AAG
65 AAG
* * * * *
252817 AAGGTGCCACGGAGTCATGGACTTAAAAAGAAC-AAG-GTGCCACGGGGTCGTGGACTTAAATGG
1 AAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTT---T-G
252880 AACAA-
62 AACAAG
* * * *
252885 AAAGTGCCACGGAGTTGTGGACTTAGAAGGAA-AAAGAGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAACA
252949 AG
66 AG
* * ** * * *
252951 AGGGTGCCACTGAGTCGTGGACTTTGAA-GAA-AAA-A-TGCCACTGAGTCGTGGACTTTGAGAC
1 AAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGA-AC
253012 AA-
65 AAG
*
253014 AA--TGCCACGGAGTCGTGGACTTTAAAG
1 AAGGTGCCACGGAGTCGTGGACTTAAAAG
253041 AAAAGGATGC
Statistics
Matches: 285, Mismatches: 48, Indels: 47
0.75 0.13 0.12
Matches are distributed among these distances:
61 35 0.12
62 10 0.04
63 49 0.17
64 22 0.08
65 17 0.06
66 59 0.21
67 20 0.07
68 53 0.19
69 20 0.07
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.19
Consensus pattern (67 bp):
AAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAACA
AG
Found at i:252976 original size:32 final size:31
Alignment explanation
Indices: 252788--253133 Score: 258
Period size: 31 Copynumber: 10.9 Consensus size: 31
252778 AGGAACAAAG
* *
252788 AGTGCCACGGAGTTGTGGGCTTTGAA-AAGAA
1 AGTGCCACGGAGTCGTGGACTTTGAAGAA-AA
* * **
252819 GGTGCCACGGAGTCATGGACTTAAAAAGAACAA
1 AGTGCCACGGAGTCGTGGACTT-TGAAGAA-AA
* * *
252852 GGTGCCACGGGGTCGTGGACTTAAATGGAACAAAA
1 AGTGCCACGGAGTCGTGGACTT---T-GAAGAAAA
* *
252887 AGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
1 AGTGCCACGGAGTCGTGGACTTTGAA-G-AAAA
* * *
252920 GAGTGCCACGGAGTTGTGGGCTTTGAAGAAGAG
1 -AGTGCCACGGAGTCGTGGACTTTGAAGAA-AA
* *
252953 GGTGCCACTGAGTCGTGGACTTTGAAGAAAA
1 AGTGCCACGGAGTCGTGGACTTTGAAGAAAA
* *
252984 AATGCCACTGAGTCGTGGACTTTG-AGACAAA
1 AGTGCCACGGAGTCGTGGACTTTGAAGA-AAA
*
253015 A-TGCCACGGAGTCGTGGACTTTAAAGAAAA
1 AGTGCCACGGAGTCGTGGACTTTGAAGAAAA
* **
253045 GGATGCCACTCAGTCGTGGACTTTG-AGACAAA
1 AG-TGCCACGGAGTCGTGGACTTTGAAGA-AAA
* * *
253077 A-TGCTACTGAGTCGTGG-CTTTG-AGAAGAG
1 AGTGCCACGGAGTCGTGGACTTTGAAGAA-AA
* *
253106 ATTGCCACTGAGTCGTGGACTTT-AAGAA
1 AGTGCCACGGAGTCGTGGACTTTGAAGAA
253134 GGTATTTGAC
Statistics
Matches: 259, Mismatches: 38, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.00
29 10 0.04
30 55 0.21
31 62 0.24
32 51 0.20
33 30 0.12
34 24 0.09
35 22 0.08
36 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.32, T:0.21
Consensus pattern (31 bp):
AGTGCCACGGAGTCGTGGACTTTGAAGAAAA
Found at i:253092 original size:30 final size:29
Alignment explanation
Indices: 252955--253133 Score: 216
Period size: 30 Copynumber: 5.9 Consensus size: 29
252945 AAGAAGAGGG
252955 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAAA
252986 TGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAA
* *
253016 TGCCACGGAGTCGTGGACTTTAAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTT-GAGAAAA--A
*
253048 TGCCACTCAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAA
* *
253078 TGCTACTGAGTCGTGG-CTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAA-A-AA
*
253108 TGCCACTGAGTCGTGGACTTTAAGAA
1 TGCCACTGAGTCGTGGACTTTGAGAA
253134 GGTATTTGAC
Statistics
Matches: 130, Mismatches: 10, Indels: 16
0.83 0.06 0.10
Matches are distributed among these distances:
28 1 0.01
29 10 0.08
30 60 0.46
31 36 0.28
32 23 0.18
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (29 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAA
Found at i:254465 original size:23 final size:24
Alignment explanation
Indices: 254420--254467 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
254410 TTTGCACCTT
**
254420 TTTTGTTCTATTTTTTGTGTTTTG
1 TTTTGTTCTATTTTTTGACTTTTG
*
254444 TTTTGTT-TTTTTTTTGACTTTTG
1 TTTTGTTCTATTTTTTGACTTTTG
254467 T
1 T
254468 CTGTGTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.04, C:0.04, G:0.15, T:0.77
Consensus pattern (24 bp):
TTTTGTTCTATTTTTTGACTTTTG
Found at i:261420 original size:52 final size:52
Alignment explanation
Indices: 261335--261458 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 52
261325 ATATGAAAAG
* *
261335 TTGCCTGCATTTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
* *
261387 TTGCCTCCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
261439 TTGCCTGCATGTATCGATAC
1 TTGCCTGCATGTATCGATAC
261459 GAAGATCAGT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:261472 original size:52 final size:51
Alignment explanation
Indices: 261335--261479 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 51
261325 ATATGAAAAG
* *
261335 TTGCCTGCATTTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTCCATGTATCGATACA--TAGATAGTGTATCGATACATCTGGGCAAAT
** *
261387 TTGCCTCCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTCCATGTATCGATACA-TAGATAGTGTATCGATACATCTGGGCAAAT
*
261439 TTGCCTGCATGTATCGATACGA-AGATCAGTGTATCGATACA
1 TTGCCTCCATGTATCGATAC-ATAGAT-AGTGTATCGATACA
261480 ATGTATTGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
51 4 0.05
52 77 0.94
53 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (51 bp):
TTGCCTCCATGTATCGATACATAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:261559 original size:19 final size:19
Alignment explanation
Indices: 261535--261586 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
261525 TAGCTTAAAT
261535 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
261554 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
261573 TGTATCGATACAAA
1 TGTATCGATACAAA
261587 TCGTTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:262681 original size:21 final size:21
Alignment explanation
Indices: 262657--262700 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
262647 GTAATTTGAA
262657 TTTATGAAATACAATGTTTGT
1 TTTATGAAATACAATGTTTGT
*
262678 TTTATGAAATGCAATGTTTGT
1 TTTATGAAATACAATGTTTGT
262699 TT
1 TT
262701 GTGTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.50
Consensus pattern (21 bp):
TTTATGAAATACAATGTTTGT
Found at i:277036 original size:28 final size:28
Alignment explanation
Indices: 276812--277053 Score: 207
Period size: 28 Copynumber: 8.5 Consensus size: 28
276802 AAACCTTTTT
**
276812 CCCTTTCAAAAGCCCACAAGTTAGCAGCA
1 CCCTTTC-AAAGCCCACAAGTTAGTGGCA
* *
276841 TCCTTTCAAAGCTCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTTAGTGGCA
* * ** *
276869 TCTTTTCAAAGCCCATGAGTTAGTAGCA
1 CCCTTTCAAAGCCCACAAGTTAGTGGCA
* *** *
276897 TCCTTTTCAAAGTGTACAAGTCAGTGGCA
1 -CCCTTTCAAAGCCCACAAGTTAGTGGCA
* * ** * *
276926 GTCTTTTCAAATTCCACAAATCAGTGGCA
1 -CCCTTTCAAAGCCCACAAGTTAGTGGCA
*
276955 CCCTTTTAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTTAGTGGCA
* *
276983 CCCTTTCAACGCCCACAAATTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTTAGTGGCA
***
277011 CCCTTTCAAAGCCCACAAGCCGGTGGCA
1 CCCTTTCAAAGCCCACAAGTTAGTGGCA
277039 -CCTTTACAAAGCCCA
1 CCCTTT-CAAAGCCCA
277054 TGTTATGATC
Statistics
Matches: 173, Mismatches: 38, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
27 5 0.03
28 119 0.69
29 49 0.28
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTTAGTGGCA
Found at i:277464 original size:33 final size:34
Alignment explanation
Indices: 277424--277493 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
277414 CTACCATTGT
277424 TTGTATCGATACATG-GGACAA-TGTATCAATACA
1 TTGTATCGATACATGAGGA-AATTGTATCAATACA
* *
277457 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCAATACA
277491 TTG
1 TTG
277494 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCAATACA
Found at i:277544 original size:52 final size:52
Alignment explanation
Indices: 277479--277596 Score: 236
Period size: 52 Copynumber: 2.3 Consensus size: 52
277469 ATGATGAAAT
277479 TGTATCGATACATTGCTTGTAACGGCTATAAACGGCTATAATTTCAAATCAA
1 TGTATCGATACATTGCTTGTAACGGCTATAAACGGCTATAATTTCAAATCAA
277531 TGTATCGATACATTGCTTGTAACGGCTATAAACGGCTATAATTTCAAATCAA
1 TGTATCGATACATTGCTTGTAACGGCTATAAACGGCTATAATTTCAAATCAA
277583 TGTATCGATACATT
1 TGTATCGATACATT
277597 ATGAATTGTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (52 bp):
TGTATCGATACATTGCTTGTAACGGCTATAAACGGCTATAATTTCAAATCAA
Found at i:286029 original size:49 final size:49
Alignment explanation
Indices: 285799--286351 Score: 439
Period size: 49 Copynumber: 11.0 Consensus size: 49
285789 AGAAGAGTGA
* * * * *
285799 TAAAGGTGCCAATATGCTAATTC-AGGACCAGTGATATTGGGCTTAAAGAT
1 TAAAGGTGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGACTTAAAG-T
* * * * * *
285849 TAAAAGAATGTCAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAAAT
1 T-AAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGT
* * * *
285901 GAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGG-GTTAAGGAATGT
1 TA-AAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-A--AA-GT
* * * * * *
285955 T-ACGGATGCCAATATGTTGATTCAAGGCTAGTGATATTGGACTTAAAGT
1 TAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGT
286004 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGC-AGCATTGGACTTAAAGAT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA-CATTGGACTTAAAG-T
* * * * * *
286054 GACAAAGGCGTCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGAT
1 --TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-T
* ** * * * * *
286106 GACAAAGACGTCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGG
1 --TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGT
* * * * *
286157 TGAAGGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGAATTAAAGG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGT
* * * *
286206 TGAAGGTGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAGG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGT
* * * *
286255 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGT
* * * *
286304 TGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGGCTTAAAG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
286352 GTGCCACGGA
Statistics
Matches: 421, Mismatches: 66, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.00
49 212 0.50
50 7 0.02
51 8 0.02
52 182 0.43
53 10 0.02
54 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (49 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGT
Found at i:286095 original size:153 final size:149
Alignment explanation
Indices: 285801--286331 Score: 515
Period size: 153 Copynumber: 3.5 Consensus size: 149
285791 AAGAGTGATA
* * * * * *
285801 AAGG-TGCCAATATGCTAATTC-AGGACCAGTGATATTGGGCTTAAAGATTAAAAGAATGTCAAT
1 AAGGATGCCAATATGCTGATTCAAGG-CCAGCGATATTGGACTTAAAG-GT-AAAG-GTGCCAAT
* * * *
285864 GTGCTGATTCACGGTCAGC-GACATTAGACTTGAAA-ATGAGAAGAATGC-CAATGTGCTGATTC
62 GTGCTGATTCAAGGCCAGCAG-CATTGGACTT-AAAGAT--GAA-AAGGCGCAATGTGCTGATTC
* * *
285926 AAGGCCAACGACATTGG-GTTAAGGAATG
122 AAGGCCAGCAACATTGGACTTAAGG-ATG
* * * * *
285954 TTACGGATGCCAATATGTTGATTCAAGGCTAGTGATATTGGACTTAAAGTTAAAGGTGCCAATGT
1 --AAGGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGGTGCCAATGT
*
286019 GCTGATTCAAGGCCAGCAGCATTGGACTTAAAGATGACAAAGGCGTCAATATGCTGATTCAAGGC
64 GCTGATTCAAGGCCAGCAGCATTGGACTTAAAGATGA-AAAGGCG-CAATGTGCTGATTCAAGGC
* *
286084 CAGCAATATTGGACTTAAAGATG
127 CAGCAACATTGGACTTAAGGATG
* * * * *
286107 ACAAAGACGTCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGAAGGTGCCAATGT
1 --AAGGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGGTGCCAATGT
* * * * * *
286172 GCTGATTCAAGGCCAACAACATTGGAATTAAAGGTG--AAGGTGCCAATGTGTTGATTCAAGGCC
64 GCTGATTCAAGGCCAGCAGCATTGGACTTAAAGATGAAAAGGCG-CAATGTGCTGATTCAAGGCC
286235 AGCAACATTGGACTTAAAGG-TG
128 AGCAACATTGGACTT-AAGGATG
* * *
286257 AAGG-TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCCAATGTGC
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGGTGCCAATGTGC
286321 TGATTCAAGGC
66 TGATTCAAGGC
286332 TAGCGATATT
Statistics
Matches: 322, Mismatches: 45, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
147 66 0.20
148 3 0.01
150 39 0.12
151 9 0.03
152 4 0.01
153 149 0.46
154 10 0.03
155 5 0.02
156 34 0.11
157 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (149 bp):
AAGGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTAAAGGTGCCAATGTGC
TGATTCAAGGCCAGCAGCATTGGACTTAAAGATGAAAAGGCGCAATGTGCTGATTCAAGGCCAGC
AACATTGGACTTAAGGATG
Found at i:286352 original size:49 final size:49
Alignment explanation
Indices: 285860--286354 Score: 481
Period size: 49 Copynumber: 9.9 Consensus size: 49
285850 AAAAGAATGT
* * * * * * *
285860 CAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAAATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTT--AAAGGTGAAG-GTGC
* * * *
285912 CAATGTGCTGATTCAAGGCCAACGACATTGG-GTT-AAGGAATGTTACGGATGC
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGG--TG--AAGG-TGC
* * * ** * * *
285964 CAATATGTTGATTCAAGGCTAGTGATATTGGACTTAAAGTTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
* * * *
286013 CAATGTGCTGATTCAAGGCCAGCAGCATTGGACTTAAAGATGACAAAGGCGT
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTG---AAGGTGC
* * * ** *
286065 CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGACAAAGACGT
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTG---AAGGTGC
* * * *
286117 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
* *
286166 CAATGTGCTGATTCAAGGCCAACAACATTGGAATTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
*
286215 CAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
*
286264 CAATATGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
* * * *
286313 CAATGTGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGGTG
1 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTG
286355 CCACGGAGTT
Statistics
Matches: 377, Mismatches: 56, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
48 3 0.01
49 213 0.56
50 4 0.01
51 2 0.01
52 150 0.40
53 2 0.01
54 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
Found at i:286442 original size:34 final size:33
Alignment explanation
Indices: 286348--286535 Score: 166
Period size: 34 Copynumber: 5.6 Consensus size: 33
286338 TATTGGGCTT
*
286348 AAAGGTGCCACGGAGTTGTGGACTT-ATAGGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-AA
* ** *
286381 AAATGATGCCATAGAGGTGTAGG-CTTAAAAGGGAA
1 AAA-GGTGCCACGGAGTTGT-GGACTTAAAA-GGAA
* * *
286416 AAAGGTGCCATGGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
286448 TAAGGTGCCACGGAGTTGTGGGCATTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
286482 AAAAGTACCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
286515 AAAGATGCCACGAACTTGTGG
1 AAAGGTGCCACGGAGTTGTGG
286536 GCTTTTGAAG
Statistics
Matches: 124, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
32 20 0.16
33 39 0.31
34 54 0.44
35 9 0.07
36 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:286503 original size:66 final size:67
Alignment explanation
Indices: 286413--286537 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 67
286403 GCTTAAAAGG
* * * * * * *
286413 GAAAAAGGTGCCATGGAGTCGTGGACTTAAAAAG-ATAAGGTGCCACGGAGTTGTGGGCATTAAA
1 GAAAAAAGTACCACGGAGTCGTGGACTTAAAAAGAAAAAGATGCCACGAACTTGTGGGCATTAAA
286477 AA
66 AA
* *
286479 GAAAAAAGTACCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAACTTGTGGGC
1 GAAAAAAGTACCACGGAGTCGTGGACTTAAAAAGAAAAAGATGCCACGAACTTGTGGGC
286538 TTTTGAAGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
66 29 0.59
67 20 0.41
ACGTcount: A:0.38, C:0.14, G:0.30, T:0.18
Consensus pattern (67 bp):
GAAAAAAGTACCACGGAGTCGTGGACTTAAAAAGAAAAAGATGCCACGAACTTGTGGGCATTAAA
AA
Found at i:286552 original size:28 final size:28
Alignment explanation
Indices: 286520--286659 Score: 176
Period size: 28 Copynumber: 5.0 Consensus size: 28
286510 AGGAAAAAGA
*
286520 TGCCAC-GAACTTGTGGGCTTTTGAAGGT
1 TGCCACTG-ACTTATGGGCTTTTGAAGGT
286548 TGCCACTGACTTATGGGCTTTTGAAGGT
1 TGCCACTGACTTATGGGCTTTTGAAGGT
*
286576 TGCCACTGGCTTATGGGCTTTTGAAGGT
1 TGCCACTGACTTATGGGCTTTTGAAGGT
* *
286604 TGCCACTGACTTATGGGC-TTTGAAAAAGA
1 TGCCACTGACTTATGGGCTTTTG--AAGGT
* * *
286633 TGCCACTGACCTGTGGGCTTTTAAAGG
1 TGCCACTGACTTATGGGCTTTTGAAGG
286660 GTGAGGAATA
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
27 4 0.04
28 72 0.73
29 20 0.20
30 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (28 bp):
TGCCACTGACTTATGGGCTTTTGAAGGT
Found at i:288102 original size:12 final size:11
Alignment explanation
Indices: 288067--288107 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
288057 CTTTTTGTTG
288067 TTTTTTTTCTT
1 TTTTTTTTCTT
* *
288078 TGTTTGTTCTT
1 TTTTTTTTCTT
*
288089 TTTTTTGTCTT
1 TTTTTTTTCTT
288100 TTTTTTTT
1 TTTTTTTT
288108 TGCGAAGGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:288882 original size:14 final size:14
Alignment explanation
Indices: 288863--288905 Score: 86
Period size: 14 Copynumber: 3.1 Consensus size: 14
288853 CTTATAAAAG
288863 CATTTGTGCCTTGA
1 CATTTGTGCCTTGA
288877 CATTTGTGCCTTGA
1 CATTTGTGCCTTGA
288891 CATTTGTGCCTTGA
1 CATTTGTGCCTTGA
288905 C
1 C
288906 GAATAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (14 bp):
CATTTGTGCCTTGA
Found at i:291227 original size:32 final size:32
Alignment explanation
Indices: 291177--291246 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
291167 GCTTTGTAGT
* *
291177 GATACATTGTATCTATACAACACTTATGTATC
1 GATACATTGCATCAATACAACACTTATGTATC
291209 GATACATTGCATCAATACAACACTTATGTATC
1 GATACATTGCATCAATACAACACTTATGTATC
291241 GATACA
1 GATACA
291247 GTTACTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (32 bp):
GATACATTGCATCAATACAACACTTATGTATC
Found at i:305949 original size:8 final size:8
Alignment explanation
Indices: 305936--305961 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
305926 TTGGCCACTC
305936 CAAATCAG
1 CAAATCAG
305944 CAAATCAG
1 CAAATCAG
305952 CAAATCAG
1 CAAATCAG
305960 CA
1 CA
305962 TAGTGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.12, T:0.12
Consensus pattern (8 bp):
CAAATCAG
Found at i:308597 original size:21 final size:21
Alignment explanation
Indices: 308572--308614 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
308562 CATGTCAGGA
308572 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
308593 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
308614 G
1 G
308615 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:310755 original size:67 final size:68
Alignment explanation
Indices: 310633--310759 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 68
310623 ATTGGGTTTT
* * * *
310633 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATA
1 AAAGATGATAAAGATGCCAATAAGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATA
310698 AGA
66 AGA
* * * * *
310701 AAAG-TGATAAAGATGCCAATAAGTTGATTCATGGCCAACGATCTTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATAAGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
310760 GAAAAAGGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
67 46 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATAAGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATA
AGA
Found at i:310856 original size:49 final size:49
Alignment explanation
Indices: 310776--311493 Score: 1049
Period size: 49 Copynumber: 14.7 Consensus size: 49
310766 GGATGTCAAC
* *
310776 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
310825 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
310874 GTGCTGAGTCAAGGCCAGCTACATTAGTCTAAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
310923 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
310972 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
311021 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
311070 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
311119 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
311168 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
311217 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
311266 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
311315 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * * *
311364 ATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
311413 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
311462 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
311494 GAAGGGTTGC
Statistics
Matches: 601, Mismatches: 68, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 601 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:310975 original size:147 final size:147
Alignment explanation
Indices: 310777--311488 Score: 1219
Period size: 147 Copynumber: 4.8 Consensus size: 147
310767 GATGTCAACG
* * * * * *
310777 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
* * *
310842 GCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTAGTCTAAA
66 GCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTAAA
310907 AGATAAAGGTGCCAATA
131 AGATAAAGGTGCCAATA
310924 TGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
310989 GCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
66 GCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC-TAA
311054 AA-ATAAAGGTGCCAATA
130 AAGATAAAGGTGCCAATA
311071 TGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
*
311136 GCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA
66 GCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTAAA
311201 AGATAAAGGTGCCAATA
131 AGATAAAGGTGCCAATA
311218 TGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
* * * * *
311283 GCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
66 GCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTAAA
*
311348 TGATAAAGGTGCCAATA
131 AGATAAAGGTGCCAATA
*
311365 TGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
* * * *
311430 GCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGG
66 GCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGG
311489 GCTTAGAAGG
Statistics
Matches: 547, Mismatches: 16, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
146 4 0.01
147 538 0.98
148 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (147 bp):
TGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
GCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTAAA
AGATAAAGGTGCCAATA
Found at i:311592 original size:33 final size:33
Alignment explanation
Indices: 311493--311593 Score: 184
Period size: 33 Copynumber: 3.0 Consensus size: 33
311483 TATTGGGCTT
*
311493 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGGG
311527 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGG
311560 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGG
311593 A
1 A
311594 AGGAAAAAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
33 62 0.94
34 4 0.06
ACGTcount: A:0.17, C:0.18, G:0.39, T:0.27
Consensus pattern (33 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGG
Found at i:311680 original size:33 final size:33
Alignment explanation
Indices: 311593--312161 Score: 519
Period size: 33 Copynumber: 16.9 Consensus size: 33
311583 GGGCTTTGGG
*
311593 AAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAA
1 AAGG-AAAAAG-TGCCACGGAGTTGTGGGCTTTAA
311627 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GG-AAAA-AGTGCCACGGAGTTGTGGGCTTTAA
311663 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
311697 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GG-AAAA-AGTGCCACGGAGTTGTGGGCTTTAA
*
311733 ACGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAA-GTGCCACGGAGTTGTGGGCTTT-AA
**
311768 AAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAA
1 AAGG--AAAA-AGTGCCACGGAGTTGTGGGCTTTAA
*
311804 AA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAA-AAAGTGCCACGGAGTTGTGGGCTTT-AA
* * *
311838 AA-GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AAGGAA-AAAG-TGCCACGGA-GT-TGTGGGCTTTA--A
* * *
311876 AGGGAGAAAGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAG-TGCCACGGAGTTGTGGGCTTTAA
311909 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GG-AAAA-AGTGCCACGGAGTTGTGGGCTTTAA
*
311945 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
*
311978 AAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAA
1 AAGGAAAAA-GTGCCACGGAGTTGTGGGCTTTAA
* *
312011 ACGG-----GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* * *
312038 AGATGAAAAAGTGCCACAGAATTGTGGGCTTTAA
1 A-AGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
*
312072 AAGG-----GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
312099 AAGGAACAAGGTGCCACGGAGTTATGGGCTTT-A
1 AAGGAA-AAAGTGCCACGGAGTTGTGGGCTTTAA
* * * *
312132 AA-GAAAAAATGCCACTGAGTCGTGGACTTT
1 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTT
312162 GAGACAAAAT
Statistics
Matches: 453, Mismatches: 43, Indels: 81
0.79 0.07 0.14
Matches are distributed among these distances:
27 31 0.07
28 17 0.04
31 19 0.04
32 3 0.01
33 124 0.27
34 82 0.18
35 68 0.15
36 35 0.08
37 58 0.13
38 14 0.03
39 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (33 bp):
AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:311701 original size:70 final size:69
Alignment explanation
Indices: 311593--312161 Score: 591
Period size: 70 Copynumber: 8.4 Consensus size: 69
311583 GGGCTTTGGG
311593 AAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGG
1 AAGG-AAAAAG-TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGG
311657 CTTTAA
64 CTTTAA
*
311663 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
1 AAGGAAAAAGTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
311728 TTTAA
65 TTTAA
* * * **
311733 ACGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGG
1 AAGGAAAAA-GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGG
311798 CTTTAA
64 CTTTAA
* * * * *
311804 AA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTTGCCACCGACTTGTGT
1 AAGGAA-AAAGTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAGAG-TGCCACGGA-GT-TGT
311865 GGGCTTTAGGA
61 GGGCTTTA--A
* *
311876 AGGGAGAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
1 AAGGAAAAAG-TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
311940 TTTAA
65 TTTAA
* * *
311945 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGC-
1 AAGGAAAAAGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
312007 TTAA
66 TTAA
* * * *
312011 ACGG-----GTGCCACGGAGTTGTGGAC-TT-AAAGATG-AAAA-AGTGCCACAGAATTGTGGGC
1 AAGGAAAAAGTGCCACGGAGTTGTGGACTTTAAAAG-GGAAAAAGAGTGCCACGGAGTTGTGGGC
312067 TTTAA
65 TTTAA
* *
312072 AAGG-----GTGCCACGGAGTTGTGGAC-TTAAAA-GGAACAAG-GTGCCACGGAGTTATGGGCT
1 AAGGAAAAAGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
312129 TT-A
66 TTAA
* * *
312132 AA-GAAAAAATGCCACTGAGTCGTGGACTTT
1 AAGGAAAAAGTGCCACGGAGTTGTGGACTTT
312162 GAGACAAAAT
Statistics
Matches: 432, Mismatches: 39, Indels: 61
0.81 0.07 0.11
Matches are distributed among these distances:
59 4 0.01
60 27 0.06
61 69 0.16
62 3 0.01
64 16 0.04
65 2 0.00
66 6 0.01
67 20 0.05
68 53 0.12
69 23 0.05
70 91 0.21
71 76 0.18
72 8 0.02
73 33 0.08
74 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (69 bp):
AAGGAAAAAGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
TTAA
Found at i:311793 original size:141 final size:135
Alignment explanation
Indices: 311598--312160 Score: 635
Period size: 141 Copynumber: 4.2 Consensus size: 135
311588 TTGGGAAGGA
* **
311598 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAA
311663 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
66 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGC
311728 TTTAAACGG
128 TTTAAAC-G
* *
311737 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTT
1 AAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTT
* * * *
311802 AAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAGGTTGCCACCGACTTGTGT
64 AAAAGGAA-AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAAGG-TGCCACGGA-GT-TGT
*
311865 GGGCTTTAGGAAGGG
124 GGGCTTTA--AA-CG
* * **
311880 AGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAA
* *
311945 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TT
66 AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
312009 AAACG
131 AAACG
* *
312014 -----GGTGCCACGGAGTTGTGGACTT-AAA-GATGAAAA-AGTGCCACAGAA-TTGTGGGCTTT
1 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGA-AAAAAGAGTGCCACA-AAGTTGTGGGCTTT
* * *
312070 AAAAGG-----GTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTATGGGCT
64 AAAAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCT
312129 TTAAA-G
129 TTAAACG
* *
312135 AAAAA-ATGCCACTGAGTCGTGGACTT
1 AAAAAGATGCCACGGAGTTGTGGACTT
312161 TGAGACAAAA
Statistics
Matches: 370, Mismatches: 35, Indels: 52
0.81 0.08 0.11
Matches are distributed among these distances:
121 31 0.08
122 23 0.06
125 18 0.05
127 25 0.07
128 8 0.02
129 21 0.06
134 1 0.00
135 2 0.01
137 3 0.01
138 8 0.02
139 38 0.10
140 18 0.05
141 145 0.39
142 4 0.01
143 25 0.07
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (135 bp):
AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGAGTGCCACAAAGTTGTGGGCTTTAA
AAGGAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
AAACG
Found at i:312022 original size:61 final size:61
Alignment explanation
Indices: 311887--312133 Score: 318
Period size: 61 Copynumber: 3.9 Consensus size: 61
311877 GGGAGAAAGA
311887 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 TGCCACGGAGTTGTGGACTTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAG----
*
311952 AAG
60 -GG
* * *
311955 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAACGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGG
* * *
312016 TGCCACGGAGTTGTGGACTTAAAGATGAAAAA-GTGCCACAGAATTGTGGGCTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAA-AGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGG
* *
312077 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGGCTTTAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
312134 GAAAAAATGC
Statistics
Matches: 161, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
60 28 0.17
61 78 0.48
66 6 0.04
67 19 0.12
68 24 0.15
69 6 0.04
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (61 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGG
Found at i:312025 original size:27 final size:26
Alignment explanation
Indices: 311987--312099 Score: 100
Period size: 27 Copynumber: 4.0 Consensus size: 26
311977 AAAAGAAAAA
*
311987 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGACTTAAA-G
312014 GGTGCCACGGAGTTGTGGACTTAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAG
* * *
312040 ATGAAAAAGTGCCACAGAATTGTGGGCTTTAAAAG
1 --G-----GTGCCACGGAGTTGTGGAC-TT-AAAG
312075 GGTGCCACGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAA
312100 AGGAACAAGG
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
26 4 0.06
27 26 0.37
28 17 0.24
33 17 0.24
34 2 0.03
35 4 0.06
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (26 bp):
GGTGCCACGGAGTTGTGGACTTAAAG
Found at i:312112 original size:94 final size:96
Alignment explanation
Indices: 311773--312146 Score: 319
Period size: 94 Copynumber: 3.8 Consensus size: 96
311763 TTGAAAAGGA
** * *
311773 AAAAAGA-GTGCCACAAAGTTGTGGGCTTTAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAAGAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTT-
* * *
311836 AAA-AGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT
64 AAAGAGAA-AAAG-TGCCACAGA-AT-TGTGGGCTTT
* * *
311872 AGGAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTG
1 A--AA---A-AGAGGTGCCACGGAGTTGTGGACTTAAAA-GGAACAAG-GTGCCACGGAGTTGTG
* *
311937 GGCTTTAAA-AGAAAAAAGTGCCACGGAGTTGTGGGCTTT
58 GGCTTTAAAGAG-AAAAAGTGCCACAGAATTGTGGGCTTT
* * *
311976 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT---A--AAC-GGGTGCCACGGAGTTGTGGAC-
1 AAAAAG----AGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCT
312034 TTAAAGATGAAAAAGTGCCACAGAATTGTGGGCTTT
62 TTAAAGA-GAAAAAGTGCCACAGAATTGTGGGCTTT
*
312070 -AAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGGCTTTAA
1 AAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAA
312133 AGA-AAAAA-TGCCAC
66 AGAGAAAAAGTGCCAC
312147 TGAGTCGTGG
Statistics
Matches: 230, Mismatches: 21, Indels: 55
0.75 0.07 0.18
Matches are distributed among these distances:
88 21 0.09
91 1 0.00
92 6 0.03
93 18 0.08
94 62 0.27
95 9 0.04
96 2 0.01
98 1 0.00
99 3 0.01
101 2 0.01
102 23 0.10
104 12 0.05
105 9 0.04
106 23 0.10
107 14 0.06
108 24 0.10
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.21
Consensus pattern (96 bp):
AAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAA
AGAGAAAAAGTGCCACAGAATTGTGGGCTTT
Found at i:312187 original size:94 final size:93
Alignment explanation
Indices: 311880--312195 Score: 299
Period size: 94 Copynumber: 3.3 Consensus size: 93
311870 TTAGGAAGGG
* *
311880 AGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AGAAAAATGCCACGGAGTTGTGGACTTAAAA-GGAACAAG-GTGCCACGGAGTTGTGGGCTTT-A
*
311945 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
63 AAGAAAAAAGTGCCACAGAGTTGTGGGCTTT
* * *
311976 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT---A--AAC-GGGTGCCACGGAGTTGTGGAC-
1 ----AGAAAAA--TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCT
*
312034 TTAAAGATGAAAAAGTGCCACAGAATTGTGGGCTTT
60 TTAAAGA--AAAAAGTGCCACAGAGTTGTGGGCTTT
** *
312070 A-AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGGCTTTAAA
1 AGAAA-AATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAA
* * *
312134 GAAAAAA-TGCCACTGAGTCGTGGACTTT
65 GAAAAAAGTGCCACAGAGTTGTGGGCTTT
* *
312162 GAGACAAAATGCCACTGAGTCGTGGACTTTAAAA
1 -AGA-AAAATGCCACGGAGTTGTGGAC-TTAAAA
312196 AGGTATTTGA
Statistics
Matches: 179, Mismatches: 21, Indels: 37
0.76 0.09 0.16
Matches are distributed among these distances:
88 19 0.11
89 3 0.02
90 1 0.01
91 1 0.01
92 22 0.12
93 11 0.06
94 78 0.44
95 16 0.09
96 2 0.01
99 1 0.01
100 6 0.03
102 19 0.11
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (93 bp):
AGAAAAATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAG
AAAAAAGTGCCACAGAGTTGTGGGCTTT
Found at i:312192 original size:122 final size:121
Alignment explanation
Indices: 311954--312195 Score: 269
Period size: 122 Copynumber: 2.0 Consensus size: 121
311944 AAAGAAAAAA
* * **
311954 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAACGGGTGC
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTAAACGAATGC
* * *
312019 CACGGAGTTGTGGACTTAAAGATGAAAAAGTGCCACAGAATTGTGGGCTTTAAAAGG
66 CACGGAGTCGTGGACTT-AAGATGAAAAAGTGCCACAGAATCGTGGACTTTAAAAGG
* *
312076 GTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTATGGGCTTTAAA-GAAAA
1 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTATGGGC-TTAAACG----
* * * *
312139 AATGCCACTGAGTCGTGGACTT-TGA-GACAAAA-TGCCACTGAGTCGTGGACTTTAAAA
61 AATGCCACGGAGTCGTGGACTTAAGATGA-AAAAGTGCCACAGAATCGTGGACTTTAAAA
312196 AGGTATTTGA
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
121 31 0.31
122 46 0.46
123 6 0.06
125 18 0.18
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.22
Consensus pattern (121 bp):
GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTAAACGAATGC
CACGGAGTCGTGGACTTAAGATGAAAAAGTGCCACAGAATCGTGGACTTTAAAAGG
Found at i:313149 original size:16 final size:16
Alignment explanation
Indices: 313125--313156 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
313115 TTTTCCTCTC
*
313125 TTTTTTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
313141 TTTTGTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
313157 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTGTTTCTTTTTTG
Found at i:313405 original size:6 final size:6
Alignment explanation
Indices: 313396--313458 Score: 58
Period size: 6 Copynumber: 10.5 Consensus size: 6
313386 CTTTGCACCC
* * *
313396 TTTTT- TTTTTG TTTTTG TTTTTG TTTTTT TTTTTG ACTCTT- TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTTTG TTTTTG
*
313443 TTTTTG ACTTTTG TTT
1 TTTTTG -TTTTTG TTT
313459 GTGTGTTTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
5 8 0.17
6 30 0.65
7 8 0.17
ACGTcount: A:0.03, C:0.05, G:0.11, T:0.81
Consensus pattern (6 bp):
TTTTTG
Found at i:313449 original size:18 final size:17
Alignment explanation
Indices: 313398--313460 Score: 72
Period size: 18 Copynumber: 3.6 Consensus size: 17
313388 TTGCACCCTT
**
313398 TTTTTTTTGTTTTTGTT
1 TTTTTTTTGTTTTTGAC
*
313415 TTTGTTTTTTTTTTTGAC
1 TTT-TTTTTGTTTTTGAC
313433 TCTTTTTTTGTTTTTGAC
1 T-TTTTTTTGTTTTTGAC
*
313451 TTTTGTTTGT
1 TTTTTTTTGT
313461 GTGTTTACTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 11 0.28
18 26 0.67
19 2 0.05
ACGTcount: A:0.03, C:0.05, G:0.13, T:0.79
Consensus pattern (17 bp):
TTTTTTTTGTTTTTGAC
Found at i:313473 original size:43 final size:41
Alignment explanation
Indices: 313396--313476 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
313386 CTTTGCACCC
* * * **
313396 TTTTTTTTTTGTTTTTGTTTTTGTTTTTTTTTTTGACTCTT
1 TTTTTTTTTTGCTTTTGTTTGTGTGTTTACTTTTGACTCTT
313437 TTTTTGTTTTTGACTTTTGTTTGTGTGTTTACTTTTGACT
1 TTTTT-TTTTTG-CTTTTGTTTGTGTGTTTACTTTTGACT
313477 GTTCCGGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 5 0.15
42 6 0.18
43 22 0.67
ACGTcount: A:0.05, C:0.06, G:0.14, T:0.75
Consensus pattern (41 bp):
TTTTTTTTTTGCTTTTGTTTGTGTGTTTACTTTTGACTCTT
Found at i:316262 original size:8 final size:8
Alignment explanation
Indices: 316249--316274 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
316239 TTGGCCACTC
316249 CAAATCAG
1 CAAATCAG
316257 CAAATCAG
1 CAAATCAG
316265 CAAATCAG
1 CAAATCAG
316273 CA
1 CA
316275 TAGTGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.12, T:0.12
Consensus pattern (8 bp):
CAAATCAG
Found at i:320264 original size:13 final size:13
Alignment explanation
Indices: 320246--320272 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
320236 ACATTATGCT
320246 TTGTATCGATACA
1 TTGTATCGATACA
320259 TTGTATCGATACA
1 TTGTATCGATACA
320272 T
1 T
320273 GCTTATTGTA
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:320282 original size:19 final size:19
Alignment explanation
Indices: 320258--320313 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
320248 GTATCGATAC
*
320258 ATTGTATCGATACATG-CTT
1 ATTGTATCGATACATGAC-A
320277 ATTGTATCGATACATGGACA
1 ATTGTATCGATACAT-GACA
320297 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
320314 GATTGGCAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 16 0.47
21 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:320302 original size:20 final size:20
Alignment explanation
Indices: 320258--320312 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
320248 GTATCGATAC
*
320258 ATTGTATCGATACAT-GCTT
1 ATTGTATCGATACATGGCTA
320277 ATTGTATCGATACATGGAC-A
1 ATTGTATCGATACATGG-CTA
320297 ATTGTATCGATACATG
1 ATTGTATCGATACATG
320313 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 15 0.45
20 17 0.52
21 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGCTA
Found at i:320383 original size:33 final size:34
Alignment explanation
Indices: 320341--320410 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
320331 CTACCACTGT
*
320341 TTGTATCGATACATG-GGACAA-TGTATTGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
*
320374 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
320408 TTG
1 TTG
320411 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:320384 original size:13 final size:13
Alignment explanation
Indices: 320362--320410 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
320352 CATGGGACAA
*
320362 TGTATTGATACAT
1 TGTATCGATACAT
320375 TGTATCGATACA-
1 TGTATCGATACAT
320387 TG-AT-GA-A-AT
1 TGTATCGATACAT
320396 TGTATCGATACAT
1 TGTATCGATACAT
320409 TG
1 TG
320411 CTTGTAACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 15 0.50
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:321165 original size:29 final size:28
Alignment explanation
Indices: 321132--321225 Score: 125
Period size: 29 Copynumber: 3.3 Consensus size: 28
321122 TTGAGCTTTC
* *
321132 AGCCCACAAGTCAGTGGCATCCTTTTAAA
1 AGCCCATAAGTCAATGGCATCCTTTT-AA
* *
321161 AGCCCATAAGTCAATAGCATCCTTTCAA
1 AGCCCATAAGTCAATGGCATCCTTTTAA
*
321189 AGCCCATGAGTCAATGGCATCCCTTTTAA
1 AGCCCATAAGTCAATGGCAT-CCTTTTAA
321218 AGCCCATA
1 AGCCCATA
321226 CAAGCTGGTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 20 0.36
29 36 0.64
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (28 bp):
AGCCCATAAGTCAATGGCATCCTTTTAA
Found at i:321246 original size:31 final size:31
Alignment explanation
Indices: 321203--321427 Score: 229
Period size: 31 Copynumber: 7.3 Consensus size: 31
321193 CATGAGTCAA
* *
321203 TGGCATCCCTTTTAAAGCCCATACAAG-CTGG
1 TGGCAACCCTTTTAAAGCCCACACAAGTC-GG
* * **
321234 TGGCAACTCTTTTAAATCCCACACAAGTCAA
1 TGGCAACCCTTTTAAAGCCCACACAAGTCGG
* * *
321265 TGGCACCCCTTTTAATGCCTACACAAGTCGG
1 TGGCAACCCTTTTAAAGCCCACACAAGTCGG
* * **
321296 TGGTAA-CCTTTCTAAAGCACACACAAGTTAG
1 TGGCAACCCTTT-TAAAGCCCACACAAGTCGG
* * *
321327 TGGCAACTCTTCTAAAGCCCACACAAGTAGG
1 TGGCAACCCTTTTAAAGCCCACACAAGTCGG
* * *
321358 TGGCAACCCTTTTAAAGCTCACATAAGTTGG
1 TGGCAACCCTTTTAAAGCCCACACAAGTCGG
* *
321389 TGGCAACCCTTCTAAAGCCTACACAAGTCGG
1 TGGCAACCCTTTTAAAGCCCACACAAGTCGG
321420 TGGCAACC
1 TGGCAACC
321428 TTTCTAAGCC
Statistics
Matches: 155, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
30 5 0.03
31 146 0.94
32 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (31 bp):
TGGCAACCCTTTTAAAGCCCACACAAGTCGG
Found at i:321626 original size:58 final size:60
Alignment explanation
Indices: 321558--321769 Score: 143
Period size: 60 Copynumber: 3.6 Consensus size: 60
321548 CCAATGTTGT
* * *
321558 TGGCCTTGAATCAACACATTGGCACTCTTT-TCATCCTTA-C-CTTTAAGTCTAATATCAC
1 TGGCCTTGAATCAACACATTGGCACTCTTTATCAT-CTTATCACTTCAAGCCCAATATCAC
* ** * * * *
321616 TGGCCTTGAATTAGTATATTGGCAC-CTTTATCATTTTATCATCTTCAAGCCCAATGTCAT
1 TGGCCTTGAATCAACACATTGGCACTCTTTATCATCTTATCA-CTTCAAGCCCAATATCAC
* * * * * **
321676 TGGCCTTGGATCAACACATTGGCACT-TGTCAAATCTTCTT-TC-TTTCAAGCCTAATATGGC
1 TGGCCTTGAATCAACACATTGGCACTCT-T--TATCATCTTATCACTTCAAGCCCAATATCAC
* * *
321736 TAGCCTTGAATCAACATATTAGCAC-CTTTATCAT
1 TGGCCTTGAATCAACACATTGGCACTCTTTATCAT
321770 TCTTCTCATC
Statistics
Matches: 115, Mismatches: 30, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
57 11 0.10
58 26 0.23
59 1 0.01
60 68 0.59
61 1 0.01
62 2 0.02
63 6 0.05
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.37
Consensus pattern (60 bp):
TGGCCTTGAATCAACACATTGGCACTCTTTATCATCTTATCACTTCAAGCCCAATATCAC
Found at i:321697 original size:60 final size:58
Alignment explanation
Indices: 321544--321701 Score: 149
Period size: 58 Copynumber: 2.7 Consensus size: 58
321534 TACCATTTTT
** *
321544 AAGCCCAATGTTGTTGGCCTTGAATCAACACATTGGCACTCTTTTCATCCTTACCTTT
1 AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACTCTTTTCATCCTTACCTTC
* * * * * ** * *
321602 AAGTCTAATATCACTGGCCTTGAATTAGTATATTGGCAC-CTTTATCAT-TTTATCATCTTC
1 AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACTCTTT-TCATCCTTA-C--CTTC
*
321662 AAGCCCAATGTCATTGGCCTTGGATCAACACATTGGCACT
1 AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACT
321702 TGTCAAATCT
Statistics
Matches: 74, Mismatches: 21, Indels: 7
0.73 0.21 0.07
Matches are distributed among these distances:
57 7 0.09
58 34 0.46
60 33 0.45
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (58 bp):
AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACTCTTTTCATCCTTACCTTC
Found at i:322625 original size:21 final size:21
Alignment explanation
Indices: 322587--322626 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
322577 GAGGGGCCTG
*
322587 GGTTTCGAACCCAGGCCACTT
1 GGTTTCGAACCCAAGCCACTT
* *
322608 GGTTTTGAACCTAAGCCAC
1 GGTTTCGAACCCAAGCCAC
322627 CCACGTTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (21 bp):
GGTTTCGAACCCAAGCCACTT
Found at i:329182 original size:186 final size:186
Alignment explanation
Indices: 328868--329242 Score: 597
Period size: 186 Copynumber: 2.0 Consensus size: 186
328858 TATATAGCTC
*
328868 TAGTGCATTGTGATAACATTGAAAAGGAAAAAGATAGTCTGCCATTGTATCATTACATTCTTCAC
1 TAGTGCATTGTGATAACATTGAAAAGGAAAAAGATAGTCTGCCATTGTATCATGACATTCTTCAC
* * * * *
328933 TATATCAAATATCAACAATACCCTAAAAACATGATTGAGAATGATAAAAAGACCATTAGAAGACT
66 TATATCAAAAATCAACAATACACTAAAAACATGACTAAGAATGACAAAAAGACCATTAGAAGACT
* *
328998 AGTTATGGGAAATAGCCTGTTCTTTCTTGCCTGACTCATCATGTTGGCATGATACA
131 AGTTATGGGAAACAGCCTGTTCCTTCTTGCCTGACTCATCATGTTGGCATGATACA
* * * *
329054 TAGTGCATTGTGATAACGTTGAAACGGAAAAGGATAGTGTGCCATTGTATCATGACATTCTTCAC
1 TAGTGCATTGTGATAACATTGAAAAGGAAAAAGATAGTCTGCCATTGTATCATGACATTCTTCAC
* ** *
329119 TATATGAAAAATCAACAATACACTAAAAATGTGACTAAGGATGACAAAAAGACCATTAGAAGACT
66 TATATCAAAAATCAACAATACACTAAAAACATGACTAAGAATGACAAAAAGACCATTAGAAGACT
*
329184 AGTTATGGGAAACAGCCTGTTCCTTCTTGCTTGACTCATCATGTTGGCATGATACA
131 AGTTATGGGAAACAGCCTGTTCCTTCTTGCCTGACTCATCATGTTGGCATGATACA
329240 TAG
1 TAG
329243 CCCATCAACT
Statistics
Matches: 172, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
186 172 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (186 bp):
TAGTGCATTGTGATAACATTGAAAAGGAAAAAGATAGTCTGCCATTGTATCATGACATTCTTCAC
TATATCAAAAATCAACAATACACTAAAAACATGACTAAGAATGACAAAAAGACCATTAGAAGACT
AGTTATGGGAAACAGCCTGTTCCTTCTTGCCTGACTCATCATGTTGGCATGATACA
Found at i:330674 original size:163 final size:166
Alignment explanation
Indices: 330439--330878 Score: 423
Period size: 163 Copynumber: 2.7 Consensus size: 166
330429 TTCTTTTTCG
* ** *
330439 TAAATTTTTTCGAGAGGATTTTTCTTAATTTTTAA-TTTTAAAATTGATCAAATATTATTATTT-
1 TAAATTTTTCCGAGA-GATTTTTCTTGGTTTTTAATTTTTAAAATT-TTCAAATATTATTATTTG
* *
330502 ATCTCATATTAAATTAGTTTTAAAAAAATTCATTCATTTTCATTAGTTGTCGA-ATTTTCCTTAA
64 AT-TCATATTAAATTAATTTTAAAAAAATTCATTCATTTTCATGAGTTGTCGATATTTTCCTTAA
** * * *
330566 AA-TTTCTCTTTTTTTGGAAATACGGTATTTTCTACTCCG
128 AACTCCCT-TTTTTTTCGAAATACGATATTTTCTACTCCA
* ** *
330605 T-AATTTTTTC-AG-TTTTTTTCTTGGTTTTTAATTTTTAAAATTCTTAAAATATTATTATTTGA
1 TAAATTTTTCCGAGAGATTTTTCTTGGTTTTTAATTTTTAAAATT-TTCAAATATTATTATTTGA
* * * * * *
330667 TTCATATT-AATTCAATTTT-TAAAAATTCATTTATTTTCATGAGTTTTTGATTTTTTCCTTGAA
65 TTCATATTAAATT-AATTTTAAAAAAATTCATTCATTTTCATGAGTTGTCGATATTTTCCTTAAA
* *
330730 ACTCCCTTTTTTTTCGAAATACGATGTTTTTTACTCCA
129 ACTCCCTTTTTTTTCGAAATACGATATTTTCTACTCCA
* * * * * *
330768 TAAATTTTTCCGAGCAGAATTTTCTTGGTTTGTATTTTTTAAAATTTATCAAACATCAATATTTG
1 TAAATTTTTCCGAG-AGATTTTTCTTGGTTTTTAATTTTTAAAATTT-TCAAATATTATTATTTG
** * * * *
330833 ATTTTTATTAAATT-ATTTTTAAAAAATTAATTGATTTGCATGAGTT
64 ATTCATATTAAATTAATTTTAAAAAAATTCATTCATTTTCATGAGTT
330879 TTGGATTTTT
Statistics
Matches: 224, Mismatches: 38, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
162 45 0.20
163 75 0.33
164 15 0.07
165 11 0.05
166 7 0.03
167 67 0.30
168 4 0.02
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (166 bp):
TAAATTTTTCCGAGAGATTTTTCTTGGTTTTTAATTTTTAAAATTTTCAAATATTATTATTTGAT
TCATATTAAATTAATTTTAAAAAAATTCATTCATTTTCATGAGTTGTCGATATTTTCCTTAAAAC
TCCCTTTTTTTTCGAAATACGATATTTTCTACTCCA
Found at i:337634 original size:19 final size:19
Alignment explanation
Indices: 337610--337674 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
337600 TAGCCAAACT
337610 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
337629 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
337642 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
337663 TGTATCGATACA
1 TGTATCGATACA
337675 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:337646 original size:13 final size:13
Alignment explanation
Indices: 337628--337653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
337618 TACACAAAAT
337628 ATGTATCGATACA
1 ATGTATCGATACA
337641 ATGTATCGATACA
1 ATGTATCGATACA
337654 CAAAAAATAT
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:337651 original size:32 final size:33
Alignment explanation
Indices: 337610--337674 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
337600 TAGCCAAACT
337610 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
337642 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
337675 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:340277 original size:75 final size:75
Alignment explanation
Indices: 340187--340343 Score: 314
Period size: 75 Copynumber: 2.1 Consensus size: 75
340177 TATGGGTGCC
340187 AAAAGGAATCGGGACTTTAAATAATGAATTAACAAAATGGATTCCTAAAGGATCAAAAGTCCTAG
1 AAAAGGAATCGGGACTTTAAATAATGAATTAACAAAATGGATTCCTAAAGGATCAAAAGTCCTAG
340252 ATACTAACGA
66 ATACTAACGA
340262 AAAAGGAATCGGGACTTTAAATAATGAATTAACAAAATGGATTCCTAAAGGATCAAAAGTCCTAG
1 AAAAGGAATCGGGACTTTAAATAATGAATTAACAAAATGGATTCCTAAAGGATCAAAAGTCCTAG
340327 ATACTAACGA
66 ATACTAACGA
340337 AAAAGGA
1 AAAAGGA
340344 CCCAAGAAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 82 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (75 bp):
AAAAGGAATCGGGACTTTAAATAATGAATTAACAAAATGGATTCCTAAAGGATCAAAAGTCCTAG
ATACTAACGA
Found at i:341816 original size:15 final size:15
Alignment explanation
Indices: 341796--341834 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
341786 TAAAAATGTC
*
341796 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
341811 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
341826 CCAAATGAA
1 CAAAATGAA
341835 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:345801 original size:73 final size:73
Alignment explanation
Indices: 345682--345828 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
345672 GAGAAAGTAG
*
345682 ATATGTGTGCAAATAAATTTTTGATATGAATTGCTTGATTAAGGGGGAGAATTATTAATAAAAAG
1 ATATGTGTGCAAATAAATTTTTGATATGAATTACTTGATTAAGGGGGAGAATTATTAATAAAAAG
345747 GGGAGATA
66 GGGAGATA
* *
345755 ATATGTGTTCAAATAAATTTTTTATATGAATTACTTGATTAAGGGGGAGAATTATTAATAAAAAG
1 ATATGTGTGCAAATAAATTTTTGATATGAATTACTTGATTAAGGGGGAGAATTATTAATAAAAAG
345820 GGGAGATA
66 GGGAGATA
345828 A
1 A
345829 AGGGGAGAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (73 bp):
ATATGTGTGCAAATAAATTTTTGATATGAATTACTTGATTAAGGGGGAGAATTATTAATAAAAAG
GGGAGATA
Found at i:346551 original size:13 final size:13
Alignment explanation
Indices: 346533--346558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
346523 TACACAAAAT
346533 ATGTATCGATACA
1 ATGTATCGATACA
346546 ATGTATCGATACA
1 ATGTATCGATACA
346559 CAAAAAATAT
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:346556 original size:32 final size:33
Alignment explanation
Indices: 346515--346579 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
346505 TAGCCAAACT
346515 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
*
346547 TGTATCGATACACAAAAAATATGTATTGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
346580 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:348411 original size:28 final size:28
Alignment explanation
Indices: 348379--348490 Score: 224
Period size: 28 Copynumber: 4.0 Consensus size: 28
348369 TACATAGTCC
348379 AAGAAATACAACAAGTTTTGCTCATGGG
1 AAGAAATACAACAAGTTTTGCTCATGGG
348407 AAGAAATACAACAAGTTTTGCTCATGGG
1 AAGAAATACAACAAGTTTTGCTCATGGG
348435 AAGAAATACAACAAGTTTTGCTCATGGG
1 AAGAAATACAACAAGTTTTGCTCATGGG
348463 AAGAAATACAACAAGTTTTGCTCATGGG
1 AAGAAATACAACAAGTTTTGCTCATGGG
348491 CTCCAATGGG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (28 bp):
AAGAAATACAACAAGTTTTGCTCATGGG
Found at i:352659 original size:88 final size:88
Alignment explanation
Indices: 352560--352833 Score: 270
Period size: 88 Copynumber: 3.1 Consensus size: 88
352550 GAATGGGGTA
* * * *
352560 GAGTGTCCCCAAGGATAGCGTTATACGAGGATAAATTTGAATTTTTGTCAAAACAGAATTAGAGT
1 GAGTTTCCCCAAGGATAACGTTATACGAAGATAAATTTGAATTTTTGTCAGAACAGAATTAGAGT
**
352625 ATCCCTTC-AGAGGAGT-AGGGATG
66 ATCCCTTCGA-AAAAGTGA-GGATG
* * * * *
352648 GAGTTTCCCCAAGTATAACGTTATACTAAGATAAATTTGAATTTCTTGTTAGAACAGGATTGGAG
1 GAGTTTCCCCAAGGATAACGTTATACGAAGATAAATTTGAATTT-TTGTCAGAACAGAATTAGAG
*
352713 TATCCCTTCGAAAAAGTGAGGATT
65 TATCCCTTCGAAAAAGTGAGGATG
* * * * *
352737 GAGTTTCCCCAAGGATAAAGTTATATGAAGACAAATGTT-AAATTTTGTCAGAAC-GAGGTTAGA
1 GAGTTTCCCCAAGGATAACGTTATACGAAGATAAAT-TTGAATTTTTGTCAGAACAGA-ATTAGA
* * **
352800 GTAT-CCTCTGGAAATAGCAAGGATG
64 GTATCCCT-TCGAAAAAGTGAGGATG
352825 GAGTTTCCC
1 GAGTTTCCC
352834 ATAAAGTTAT
Statistics
Matches: 153, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
87 4 0.03
88 77 0.50
89 68 0.44
90 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (88 bp):
GAGTTTCCCCAAGGATAACGTTATACGAAGATAAATTTGAATTTTTGTCAGAACAGAATTAGAGT
ATCCCTTCGAAAAAGTGAGGATG
Found at i:352748 original size:89 final size:88
Alignment explanation
Indices: 352560--352805 Score: 257
Period size: 89 Copynumber: 2.8 Consensus size: 88
352550 GAATGGGGTA
* * *
352560 GAGTGTCCCCAAGGATAGCGTTATACGAGGATAAATTTGAATTTTTGTCAAAACAGAATTAGAGT
1 GAGTTTCCCCAAGGATAACGTTATACGAAGATAAATTTGAATTTTTGTCAAAACAGAATTAGAGT
**
352625 ATCCCTTCAGAGGAGTAGGGATG
66 ATCCCTTCAGAAAAGTAGGGATG
* * * * * *
352648 GAGTTTCCCCAAGTATAACGTTATACTAAGATAAATTTGAATTTCTTGTTAGAACAGGATTGGAG
1 GAGTTTCCCCAAGGATAACGTTATACGAAGATAAATTTGAATTT-TTGTCAAAACAGAATTAGAG
*
352713 TATCCCTTC-GAAAAAGT-GAGGATT
65 TATCCCTTCAG-AAAAGTAG-GGATG
* * * * * *
352737 GAGTTTCCCCAAGGATAAAGTTATATGAAGACAAATGTT-AAATTTTGTCAGAAC-GAGGTTAGA
1 GAGTTTCCCCAAGGATAACGTTATACGAAGATAAAT-TTGAATTTTTGTCAAAACAGA-ATTAGA
352800 GTATCC
64 GTATCC
352806 TCTGGAAATA
Statistics
Matches: 131, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
87 1 0.01
88 60 0.46
89 68 0.52
90 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (88 bp):
GAGTTTCCCCAAGGATAACGTTATACGAAGATAAATTTGAATTTTTGTCAAAACAGAATTAGAGT
ATCCCTTCAGAAAAGTAGGGATG
Found at i:358500 original size:52 final size:52
Alignment explanation
Indices: 358352--358480 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
358342 TGAAATATGA
* *
358352 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCAGGGC
*
358404 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCAGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCAGGGC
*
358456 AAATTTGCCTGCATGTATAGATACA
1 AAATTTGCCTGCATGTATCGATACA
358481 AAGATGAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCAGGGC
Done.