Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 3 of 39
Found at i:230133 original size:92 final size:92
Alignment explanation
Indices: 229677--230136 Score: 713
Period size: 92 Copynumber: 4.9 Consensus size: 92
229667 TAAAGATGAC
* * * * * * *
229677 AAAGGCGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAACGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
229742 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
229769 AAAAATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
229834 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
229867 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
229932 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
229959 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACTTTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
230024 TGATTCAAGGCTAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * *
230051 AAAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAATGATAAAAGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
230116 TGATTCAAGGCCAGCGATATT
66 TGATTCAAGGCCAGCGATATT
230137 AGGCTTAGAA
Statistics
Matches: 341, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
92 258 0.76
94 1 0.00
96 1 0.00
98 81 0.24
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:230185 original size:33 final size:33
Alignment explanation
Indices: 230143--230599 Score: 609
Period size: 33 Copynumber: 13.9 Consensus size: 33
230133 TATTAGGCTT
*
230143 AGAAGGGTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
230176 AGAATGGTTGCTAACGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
230208 AGAAGGGTTGCCACCGACTTGTGTGGGC-TTA-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * * *
230239 AGAGGGGATTACCGCCAACTTGTGTGGGCTTT-G
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
*
230272 AGAAGGGTTGCCACCGACTTGTATGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
230305 AGAAAGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * * *
230338 AAAAAGGTTGGCACCGGCTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
230371 AGAAGGGTTGCCACCGACTTATATGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
230404 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
230437 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
230470 AAAAAGGTTACCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
230503 AGAAGGGTTGTCATCGACTTGTGTGGGCTTTTG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
230536 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
230569 AAGAA-GGTTGCCACCGACTTGCGTGGGCTTT
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
230600 TGAAAAGGAG
Statistics
Matches: 368, Mismatches: 50, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
31 8 0.02
32 64 0.17
33 293 0.80
34 3 0.01
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:230729 original size:30 final size:31
Alignment explanation
Indices: 230695--230762 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
230685 AGTTGTGGGC
*
230695 TTTGAGACAAA-ACGCCACTGAGTCGTGGA-T
1 TTTGAGA-AAAGACGCCACTGAGTCATGGACT
*
230725 TTTGAAGAAAAGGATGCCACTGAGTCATGGACT
1 TTTG-AGAAAA-GACGCCACTGAGTCATGGACT
230758 TTTGA
1 TTTGA
230763 AAAGATACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 7 0.22
31 3 0.09
32 17 0.53
33 5 0.16
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (31 bp):
TTTGAGAAAAGACGCCACTGAGTCATGGACT
Found at i:230788 original size:29 final size:29
Alignment explanation
Indices: 230670--231060 Score: 471
Period size: 29 Copynumber: 13.2 Consensus size: 29
230660 TTAAAAGGGA
* *
230670 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTG-G
* * * **
230701 ACAAA-ACGCCACTGAGTCGTGGATTTTGAAG
1 A-AAAGATGCCACTGACTTGTGGGCTTTG--G
* ** * *
230732 AAAAGGATGCCACTGAGTCATGGACTTTTG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
*
230762 AAAAGATACCACTGACTTGTGGGCTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
230791 AAAAGAT-CTCACTAACTTGTGGGCTTTGG
1 AAAAGATGC-CACTGACTTGTGGGCTTTGG
*
230820 AAAAGATGCCACTGACTTATGGGCTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
230849 AAAAGATGCCACTGACTTGTGGGCTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
230878 AAAAAGGTGCCACTGACATGTGGGCTTTGG
1 -AAAAGATGCCACTGACTTGTGGGCTTTGG
*
230908 AAAAGGGTGCCACTGACTTGTGGGCTTTGG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* *
230938 AAAAGGGTGCCATTGACTTGTGGGCTTTGG
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
230968 AAAAGATGCCACTGACTTGTGGGCTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
230997 AAAAGATGCCACTAACTTGTGGGCTTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
231026 AAAAGATGCCACTAACTTGTGGGCTTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
231055 AAAAGA
1 AAAAGA
231061 AAAAGGTGCC
Statistics
Matches: 325, Mismatches: 27, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
28 1 0.00
29 187 0.58
30 110 0.34
31 5 0.02
32 22 0.07
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:231093 original size:34 final size:34
Alignment explanation
Indices: 231042--231189 Score: 169
Period size: 35 Copynumber: 4.4 Consensus size: 34
231032 TGCCACTAAC
231042 TTGTGGGCTTTTGAAAAGAAAAAGGTGCCACGGAG
1 TTGTGGGC-TTTGAAAAGAAAAAGGTGCCACGGAG
* *
231077 TTGTGGGCTTTAAAAAGGAAAAAGATGCCACAGG-G
1 TTGTGGGCTTTGAAAA-GAAAAAGGTGCCAC-GGAG
*
231112 TTGTGGGCTTTGAAAAG---ATGGTGCCACGGAG
1 TTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAG
* * *
231143 TCGTGGACTTTGAAAAGAAAATGGTGCCACGGAG
1 TTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAG
* *
231177 TCGTGGACTTTGA
1 TTGTGGGCTTTGA
231190 TGCCACTGAG
Statistics
Matches: 100, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
30 2 0.02
31 24 0.24
34 35 0.35
35 37 0.37
36 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.24
Consensus pattern (34 bp):
TTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAG
Found at i:231154 original size:31 final size:32
Alignment explanation
Indices: 231051--231189 Score: 120
Period size: 34 Copynumber: 4.2 Consensus size: 32
231041 CTTGTGGGCT
* * *
231051 TTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGC
1 TTTGAAAAG--AATGGTGCCACGGAGTCGTGGAC
* * * * *
231085 TTTAAAAAGGAAAAAGATGCCACAGG-GTTGTGGGC
1 TTTGAAAA-G--AATGGTGCCAC-GGAGTCGTGGAC
231120 TTTGAAAAG-ATGGTGCCACGGAGTCGTGGAC
1 TTTGAAAAGAATGGTGCCACGGAGTCGTGGAC
231151 TTTGAAAAGAAAATGGTGCCACGGAGTCGTGGAC
1 TTTGAAAAG--AATGGTGCCACGGAGTCGTGGAC
231185 TTTGA
1 TTTGA
231190 TGCCACTGAG
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
30 2 0.02
31 24 0.26
34 35 0.38
35 29 0.32
36 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (32 bp):
TTTGAAAAGAATGGTGCCACGGAGTCGTGGAC
Found at i:231200 original size:23 final size:23
Alignment explanation
Indices: 231167--231212 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
231157 AAGAAAATGG
*
231167 TGCCACGGAGTCGTGGACTTTGA
1 TGCCACGGAGTCATGGACTTTGA
* *
231190 TGCCACTGAGTCATTGACTTTGA
1 TGCCACGGAGTCATGGACTTTGA
231213 GACAAGATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (23 bp):
TGCCACGGAGTCATGGACTTTGA
Found at i:232625 original size:16 final size:16
Alignment explanation
Indices: 232606--232640 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
232596 CCTTTGCACC
232606 TTTTTTCTGTGTTGTT
1 TTTTTTCTGTGTTGTT
* *
232622 TTTTTTTTGTTTTGTT
1 TTTTTTCTGTGTTGTT
232638 TTT
1 TTT
232641 ACTTTTGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (16 bp):
TTTTTTCTGTGTTGTT
Found at i:237725 original size:28 final size:27
Alignment explanation
Indices: 237661--237727 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
237651 CACAATCGAA
237661 GATACTCCAACCCCGTTAATCATCGGG
1 GATACTCCAACCCCGTTAATCATCGGG
**
237688 GATACTCCAACCCCGTT-ATTTTCGAGGG
1 GATACTCCAACCCCGTTAATCATC--GGG
237716 GATACTCCAACC
1 GATACTCCAACC
237728 TCGGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 4 0.11
27 17 0.47
28 15 0.42
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (27 bp):
GATACTCCAACCCCGTTAATCATCGGG
Found at i:237776 original size:52 final size:51
Alignment explanation
Indices: 237713--237886 Score: 167
Period size: 52 Copynumber: 3.4 Consensus size: 51
237703 TTATTTTCGA
* *
237713 GGGGATACTCCAACCTCGGTTTTGTTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCTCGGTTTTATT-CTAAAACACCAATTTTTCCACAATC
* * **
237765 GGGGATACTCCAACC-CTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACCTC-GGTTTTATTCT-AAAACACCAATTTTTCC-ACAATC
* * *
237817 GGGGATACTCCAA-CTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACCT-CGGTTTTA-TT-CTAAAACACCAATTTTTCCACAATC
*
237869 GAGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
237887 TTATTTCATC
Statistics
Matches: 99, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
51 9 0.09
52 72 0.73
53 14 0.14
54 4 0.04
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGGTTTTATTCTAAAACACCAATTTTTCCACAATC
Found at i:237902 original size:28 final size:28
Alignment explanation
Indices: 237866--237942 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
237856 ATTTTTCACA
* * *
237866 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
237894 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
237922 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
237943 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:237911 original size:212 final size:212
Alignment explanation
Indices: 237544--237939 Score: 618
Period size: 212 Copynumber: 1.9 Consensus size: 212
237534 TTCTCAATTC
* * *
237544 TCCACAATCGGGAATATTCTAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGAATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
237609 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAAGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAAGATACTCCAACCC
* *
237674 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTGTT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGTTTTGTT
237739 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
237756 TCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGAATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* *
237820 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAAGATACTCCAAC
* *
237883 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACC
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACC
237940 CCGGCTTTAT
Statistics
Matches: 167, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
211 30 0.18
212 102 0.61
213 35 0.21
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGAATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAAGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGTTTTGTT
GCTAAAACACTAATTTT
Found at i:238010 original size:107 final size:107
Alignment explanation
Indices: 237604--237999 Score: 278
Period size: 107 Copynumber: 3.7 Consensus size: 107
237594 TTCTATAATC
* * * * *
237604 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAAGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCC
* * *
237669 AACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTTCGA
64 AACCCCGTTATTTCA-CGGGGATACTCCAACCCCGTTACTTCCGA
* * * * * * * *
237713 GGGGATACTCCAACCTCG-GTTT-TGTTGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTAT-TTCCAAAAATACCAATTTCT-CACAATCGAGGATACTCC
* * * ** * *
237776 AACCCTGGTTTTATTTTCA-----AAACGCCAATTTTCCTTTA-AT-C--
64 AACCC-CG--TTA-TTTCACGGGGATACTCCAA--CCCCGTTACTTCCGA
* * *
237817 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
237882 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTTCA-CGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
237925 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
237989 CCCCGTTATTT
66 CCCCGTTATTT
238000 TCGAGGGGAT
Statistics
Matches: 220, Mismatches: 46, Indels: 44
0.71 0.15 0.14
Matches are distributed among these distances:
100 5 0.02
101 3 0.01
103 1 0.00
104 42 0.19
105 20 0.09
106 18 0.08
107 77 0.35
108 33 0.15
109 15 0.07
110 3 0.01
112 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCACGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:240150 original size:4 final size:4
Alignment explanation
Indices: 240141--240165 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
240131 TCCTGAGGTG
240141 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
240166 ATATCTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:241073 original size:21 final size:21
Alignment explanation
Indices: 241049--241105 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
241039 AAAAAATTTA
241049 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
241070 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
241091 AATGTATCGATACAT
1 AATGTATCGATACAT
241106 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:241185 original size:19 final size:19
Alignment explanation
Indices: 241161--241228 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
241151 AATTCAACAA
241161 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
241180 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
241195 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
241212 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
241229 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:241200 original size:13 final size:13
Alignment explanation
Indices: 241182--241206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
241172 ACATAAGTTT
241182 TGTATCGATACAA
1 TGTATCGATACAA
241195 TGTATCGATACA
1 TGTATCGATACA
241207 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:241204 original size:32 final size:32
Alignment explanation
Indices: 241163--241225 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
241153 TTCAACAATT
*
241163 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
241195 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
241226 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:241286 original size:13 final size:13
Alignment explanation
Indices: 241268--241293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
241258 CATTTTTCTG
241268 TGTATCGATACAT
1 TGTATCGATACAT
241281 TGTATCGATACAT
1 TGTATCGATACAT
241294 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:241290 original size:33 final size:33
Alignment explanation
Indices: 241248--241314 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
241238 GCCAAGGAAA
***
241248 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
241281 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
241314 T
1 T
241315 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:243832 original size:28 final size:27
Alignment explanation
Indices: 243765--243837 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
243755 CTTCACAATC
* *
243765 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
243792 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
243820 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
243838 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:243882 original size:51 final size:51
Alignment explanation
Indices: 243820--243990 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
243810 TTATTTCTGA
* * *
243820 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
243871 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
243924 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
243976 GAGGATACTCCAACC
1 GGGGATACTCCAACC
243991 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:244009 original size:28 final size:28
Alignment explanation
Indices: 243973--244054 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
243963 ATTTTTCACA
*
243973 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
244001 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
244029 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
244055 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:309331 original size:32 final size:33
Alignment explanation
Indices: 309295--309377 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 33
309285 TATTTGAAGA
**
309295 CTAAGATAGAAACCTCCCTATC-TTTTCACGAG
1 CTAAGATAGAAACCTCCCTATCTTTTTCAAAAG
*
309327 CTAAGATAGAACCTCTCTCCCTATCTTTTTCAAAAG
1 CTAAGATAGAA--AC-CTCCCTATCTTTTTCAAAAG
309363 CTAAGATAG-AACCTC
1 CTAAGATAGAAACCTC
309378 TCAATCACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
32 14 0.33
33 1 0.02
34 1 0.02
35 10 0.23
36 17 0.40
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.29
Consensus pattern (33 bp):
CTAAGATAGAAACCTCCCTATCTTTTTCAAAAG
Found at i:309353 original size:35 final size:36
Alignment explanation
Indices: 309308--309379 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
309298 AGATAGAAAC
**
309308 CTCCCTATC-TTTTCACGAGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTCT
309343 CTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTCT
309379 C
1 C
309380 AATCACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 9 0.26
36 25 0.74
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (36 bp):
CTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTCT
Found at i:310685 original size:68 final size:68
Alignment explanation
Indices: 310560--310702 Score: 207
Period size: 68 Copynumber: 2.1 Consensus size: 68
310550 AATATGAATT
* * * * *
310560 TTATACAACTCTCCCTCTAAATACGTTCTTACCTTTAAACTAATAAATAATAATCTC-TCTCCCT
1 TTATA-AACTCTCCCACTAAATACATTCTCACCCTTAAACTAATAAACAATAATCTCTTC-CCCT
310624 TTTTG
64 TTTTG
*
310629 TTATAAACTGTCCCACTAAATACATTCTCACCCTTAAACTAATAAACAATAATCTCTTCCCCTTT
1 TTATAAACTCTCCCACTAAATACATTCTCACCCTTAAACTAATAAACAATAATCTCTTCCCCTTT
310694 TTG
66 TTG
310697 TTATAA
1 TTATAA
310703 GCTAAGTTGA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
68 60 0.90
69 7 0.10
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (68 bp):
TTATAAACTCTCCCACTAAATACATTCTCACCCTTAAACTAATAAACAATAATCTCTTCCCCTTT
TTG
Found at i:311363 original size:33 final size:31
Alignment explanation
Indices: 311301--311363 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
311291 CAATTTAGTG
311301 TGTATCGATCCAAGAACATGTATCAATACAA
1 TGTATCGATCCAAGAACATGTATCAATACAA
* * *
311332 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGAT-CCAAG-AACATGTATCAATACA
311364 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
32 4 0.15
33 14 0.52
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (31 bp):
TGTATCGATCCAAGAACATGTATCAATACAA
Found at i:315364 original size:32 final size:32
Alignment explanation
Indices: 315312--315435 Score: 170
Period size: 32 Copynumber: 4.0 Consensus size: 32
315302 AATGATTTGC
* *
315312 ATCGATGCATAAAGTGTTGTATCGATATAATGT
1 ATCGATACAT-AAGTGTTGTATCGATACAATGT
315345 ATCGATACATAAGTGTTGTATCGATACAATGT
1 ATCGATACATAAGTGTTGTATCGATACAATGT
315377 ATCGAT--ATAA----TGTATCGATACAATGT
1 ATCGATACATAAGTGTTGTATCGATACAATGT
*
315403 ATCGATACATAAGTTTTGTATCGATACAATGT
1 ATCGATACATAAGTGTTGTATCGATACAATGT
315435 A
1 A
315436 AGCTACTGCC
Statistics
Matches: 83, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
26 22 0.27
28 4 0.05
30 4 0.05
32 44 0.53
33 9 0.11
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (32 bp):
ATCGATACATAAGTGTTGTATCGATACAATGT
Found at i:315410 original size:13 final size:13
Alignment explanation
Indices: 315329--315411 Score: 94
Period size: 13 Copynumber: 5.9 Consensus size: 13
315319 CATAAAGTGT
*
315329 TGTATCGATATAA
1 TGTATCGATACAA
315342 TGTATCGATACATAA
1 TGTATCGATAC--AA
315357 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
315374 TGTATCGATATAA
1 TGTATCGATACAA
315387 TGTATCGATACAA
1 TGTATCGATACAA
315400 TGTATCGATACA
1 TGTATCGATACA
315412 TAAGTTTTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
13 46 0.75
15 2 0.03
17 2 0.03
19 11 0.18
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:315549 original size:52 final size:51
Alignment explanation
Indices: 315486--315634 Score: 203
Period size: 52 Copynumber: 2.9 Consensus size: 51
315476 ATCAATACAT
**
315486 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATTGAT-AATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
315538 TGTATCGATACACTAT-AAAATGTATCGATACATGCAGGAAAATTTGCCCAGA
1 TGTATCGATACA-T-TGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
315590 TGTATCGATACACTATGA-AATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACA-T-TGATAATGTATCGATACATGCAGGCAAATTT
315635 TCATATTTCG
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
52 85 0.96
53 3 0.03
54 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (51 bp):
TGTATCGATACATTGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:320801 original size:27 final size:27
Alignment explanation
Indices: 320746--320816 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
320736 GGAATAAAGC
** *
320746 CGGGGTTTGAGTATCCCCTCGGAAGTAA
1 CGGGG-TTGAGTATCCCCGAGGAAATAA
*
320774 CGGGGTTGAGTATCCCCGATGAAATAA
1 CGGGGTTGAGTATCCCCGAGGAAATAA
*
320801 CGAGGTTGGAGTATCC
1 CGGGGTT-GAGTATCC
320817 TCAATTGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.65
28 13 0.35
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (27 bp):
CGGGGTTGAGTATCCCCGAGGAAATAA
Found at i:320864 original size:52 final size:50
Alignment explanation
Indices: 320804--320972 Score: 167
Period size: 52 Copynumber: 3.3 Consensus size: 50
320794 GAAATAACGA
* *
320804 GGTTGGAGTATCCTCAATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTA-TTTTGGAAATAAAACCG
* ** * * *
320855 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCATTTTGAAAATAAAACCAG
1 G-GTTGGAGTATCCTCGATT-GTGAAAAATTGGTATTTTGGAAATAAAACC-G
* * * *
320908 GGTTGGAGTATCCTCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTGGAAATAAAACC-G
*
320960 GGTTAGAGTATCC
1 GGTTGGAGTATCC
320973 CCTCAAAAAT
Statistics
Matches: 94, Mismatches: 20, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
51 1 0.01
52 81 0.86
53 12 0.13
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTGGAAATAAAACCG
Found at i:324168 original size:55 final size:54
Alignment explanation
Indices: 324085--324414 Score: 457
Period size: 55 Copynumber: 6.0 Consensus size: 54
324075 ATAAAGTGTA
* * * * * * **
324085 TCCTGGTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
324140 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
324195 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
324250 TCCTGCTCTTTGGGGACTGAAAGGTGCCTCCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
324305 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
324360 TCCTGCTGTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
324415 CCACCAACTT
Statistics
Matches: 250, Mismatches: 17, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
54 7 0.03
55 232 0.93
56 11 0.04
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:324270 original size:26 final size:26
Alignment explanation
Indices: 324241--324323 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
324231 GTGTGGGCTT
324241 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
* *
324267 TGAAAGGTG-CCTCCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
324294 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
324322 TG
1 TG
324324 GAAAATGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
25 4 0.09
26 12 0.28
27 6 0.14
28 9 0.21
29 8 0.19
30 4 0.09
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:324283 original size:110 final size:110
Alignment explanation
Indices: 324085--324414 Score: 504
Period size: 110 Copynumber: 3.0 Consensus size: 110
324075 ATAAAGTGTA
* * * * * **
324085 TCCTGGTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
324149 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
324195 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
324260 TGGGGACTGAAAGGTGCCTCCAACTTGTGTGGGCTTTAAGAGGTG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
324305 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTGTT
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
*
324370 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
324415 CCACCAACTT
Statistics
Matches: 203, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
110 192 0.95
111 11 0.05
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (110 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:324304 original size:29 final size:28
Alignment explanation
Indices: 324159--324828 Score: 147
Period size: 28 Copynumber: 24.2 Consensus size: 28
324149 TTGAGGACTG
*
324159 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * * * *
324187 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCTCCAACTTGTGTGGGCTTT
** *
324214 AAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * *
324242 GAAAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 -AAAGGTG-CCTCCAACTTGTGTGGG-CTTT
324269 AAAGGTGCCTCCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * * * **
324297 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCTCCAACTTGTGTGGGCTTT
* *
324325 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
** * **
324352 GAAAGGTG--TCCTGC-TGTTTGAGGACTGG
1 -AAAGGTGCCTCCAACTTGTGTG-GG-CTTT
* *
324380 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
*
324407 GAAAGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * * * **
324436 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCTCCAACTTGTGTGGGCTTT
* *
324464 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * *
324491 GAAAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 -AAAGGTG-CCTCCAACTTGTGTGGG-CTTT
*
324518 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * *
324546 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCTCCAACTTGTGTGGG-CTTT
* *
324573 AAAGGTGCCACCAACTTGTATGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * * * **
324601 AAAAGGTG--TCCTACTCTTTGAGGACTGG
1 -AAAGGTGCCTCCAACT-TGTGTGGGCTTT
* *
324629 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * * * * **
324656 GAAAGGTGTCTTGC-TCTT-TGAGGACTGG
1 -AAAGGTG-CCTCCAACTTGTGTGGGCTTT
* *
324684 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * * * **
324711 GAAAGGTGTCCTGC-TCTT-TGAGGACTAG
1 -AAAGGTG-CCTCCAACTTGTGTGGGCTTT
* *
324739 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
* * *
324766 GAAAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 -AAAGGTG-CCTCCAACTTGTGTGGG-CTTT
*
324793 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCTCCAACTTGTGTGGGCTTT
324821 AAGAGGTG
1 AA-AGGTG
324829 TCTTGCTCTT
Statistics
Matches: 431, Mismatches: 144, Indels: 133
0.61 0.20 0.19
Matches are distributed among these distances:
25 27 0.06
26 73 0.17
27 94 0.22
28 108 0.25
29 102 0.24
30 27 0.06
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (28 bp):
AAAGGTGCCTCCAACTTGTGTGGGCTTT
Found at i:324462 original size:139 final size:139
Alignment explanation
Indices: 324267--324553 Score: 506
Period size: 139 Copynumber: 2.1 Consensus size: 139
324257 CTTTGGGGAC
*
324267 TGAAAGGTGCCTCCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGC
1 TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGC
*
324332 CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTGTTTGAGGACTGGAAA-ATGCCACCAACTT
66 CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTT
324396 GTGTGGGCTT
130 GTGTGGGCTT
324406 TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGC
1 TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGC
* *
324471 CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTG
66 CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTG
324536 TGTGGGCTT
131 TGTGGGCTT
324545 T-AAGAGGTG
1 TGAA-AGGTG
324554 TCCTGCTCTT
Statistics
Matches: 142, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
138 6 0.04
139 136 0.96
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (139 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGC
CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTG
TGTGGGCTT
Found at i:324486 original size:194 final size:194
Alignment explanation
Indices: 324219--324608 Score: 594
Period size: 194 Copynumber: 2.0 Consensus size: 194
324209 GACTGAAAAA
* * *
324219 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCTCCAAC
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAAC
324284 TTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGG
66 TTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTGTGG
* * *
324347 GCTTTGAA-AGGTGTCCTGCTGTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA
129 GCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTTGTATGGGCTTTAAA
324410 AGG
192 AGG
324413 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-GAAAGATGCCACCA
* *
324476 ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGG
64 ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGG
* *
324541 GCTTTAAGAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAG
129 GCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTATGGGCTTTAAAAG
324606 G
194 G
324607 TG
1 TG
324609 TCCTACTCTT
Statistics
Matches: 180, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
193 12 0.07
194 162 0.90
195 6 0.03
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (194 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAAC
TTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGC
TTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTATGGGCTTTAAAAGG
Found at i:324498 original size:55 final size:54
Alignment explanation
Indices: 324413--324906 Score: 760
Period size: 55 Copynumber: 9.0 Consensus size: 54
324403 CTTTGAAAGG
324413 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-GAAAA
* *
324468 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAA-A
* *
324523 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGAAA-A
* * *
324578 TGCCACCAACTTGTATGGGCTTTAAAAGGTGTCCTACTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAA
*
324633 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAA
324688 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTAGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAA
* *
324743 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAA-A
*
324798 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCTTGCTCTTTGAGGACTAGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT-GAAAA
*
324853 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTAAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
324907 GCGGAATGAG
Statistics
Matches: 411, Mismatches: 19, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
54 16 0.04
55 381 0.93
56 14 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (54 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAA
Found at i:324519 original size:26 final size:26
Alignment explanation
Indices: 324490--324579 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 26
324480 GTGTGGGCTT
324490 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
324516 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
324543 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
324571 TGAAAGGTG
1 TGAAAGGTG
324580 CCACCAACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.18
28 9 0.18
29 8 0.16
30 3 0.06
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:324599 original size:249 final size:249
Alignment explanation
Indices: 324157--324663 Score: 926
Period size: 249 Copynumber: 2.0 Consensus size: 249
324147 CTTTGAGGAC
324157 TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAAATGC
1 TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAAATGC
*
324222 CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCTCCAACTTG
66 CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTG
*
324287 TGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
131 TGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT
* * *
324352 GAAAGGTGTCCTGCTGTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
196 AAAAGGTGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
*
324406 TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGC
1 TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAAATGC
324471 CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTG
66 CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTG
* *
324536 TGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTATGGGCTT
131 TGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTATGGGCTT
324600 TAAAAGGTGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
195 TAAAAGGTGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
324655 TGAAAGGTG
1 TGAAAGGTG
324664 TCTTGCTCTT
Statistics
Matches: 249, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
248 4 0.02
249 245 0.98
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (249 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAAATGC
CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTG
TGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT
AAAAGGTGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
Found at i:324657 original size:304 final size:304
Alignment explanation
Indices: 324108--324718 Score: 1032
Period size: 304 Copynumber: 2.0 Consensus size: 304
324098 GGAGTAAAAA
*
324108 GTGCCACCAACTCGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAA
1 GTGCCACCAACTCGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAGGACTGAAAGATGCCACCAA
324173 CTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGG
66 CTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGG
* * *
324238 CTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCTCCAACTTGTGTGGGCTTTAAGAGG
131 CTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGG
* *
324303 TGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTG
196 TGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTC
324368 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
261 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* * **
324412 GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACC
1 GTGCCACCAACTCGTGTGGGCTTTGAA-AAGCATCCTGCTCTTTGAGGACT-GAAAGATGCCACC
* **
324475 AACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGT
64 AACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGT
324539 GGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAA
128 GGGCTTTGAA-AGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAA
*
324603 AAGGTGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCTT
192 AAGGTGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCT
324668 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
257 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
324716 GTG
1 GTG
324719 TCCTGCTCTT
Statistics
Matches: 289, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
303 4 0.01
304 279 0.97
305 6 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (304 bp):
GTGCCACCAACTCGTGTGGGCTTTGAAAAGCATCCTGCTCTTTGAGGACTGAAAGATGCCACCAA
CTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGG
CTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGG
TGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTC
TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:331595 original size:17 final size:17
Alignment explanation
Indices: 331573--331606 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
331563 ACATCAATTC
*
331573 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
331590 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
331607 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:338420 original size:59 final size:59
Alignment explanation
Indices: 338325--338439 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 59
338315 AATAACGGGG
* * * ** *
338325 TTGGAGTGTTCCCTTGAAAATAACGGGGCTCAAGTATCCCCGGTTGTGAGAAATCAGGA
1 TTGGAGTATCCCCTCGAAAATAACGGGGCTCAAGTATCCCCAATTATGAGAAATCAGGA
* **
338384 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCA
1 TTGGAGTATCCCCTCGAAAATAACGGGGCTCAAGTATCCCCAATTATGAGAAATCA
338440 ATATTTTGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (59 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGCTCAAGTATCCCCAATTATGAGAAATCAGGA
Found at i:338498 original size:28 final size:28
Alignment explanation
Indices: 338458--338529 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
338448 GGAATAAAGC
** *
338458 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
338486 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
338514 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
338530 TCGATGGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:338552 original size:107 final size:107
Alignment explanation
Indices: 338384--338796 Score: 337
Period size: 107 Copynumber: 3.9 Consensus size: 107
338374 GAAATCAGGA
* * * * * *
338384 TTGGAGTATCCCC--TCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTT
1 TTGGAGTATCCCCGAT-G-AAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTT
* * *
338447 GGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGG
64 GGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGG
* * *
338491 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATGGTGAAAAATTGGTATTTTTG
1 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTA-TTTTG
* * * * **
338556 GAAATAAAATCGGAGTTGGAGTAT-CCC-C-G-ATTAAAGGAAAA
65 GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGG--GG
* ** * *
338597 TTGGCGT-T--TTGA--AAATAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTT
1 TTGGAGTATCCCCGATGAAAT--AACGA-GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATT
* * *
338657 TTAGCAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAACGGGG
62 TTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGG
* * * *
338703 TTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTT
1 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAA-AAATT--AGTATTT
* * *
338767 TGGAAATAAAATCGGAGTTAGAGTATCCCC
63 TGGAAATAAAACCGGGGTTGGAGTATCCCC
338797 GATTATAGAA
Statistics
Matches: 237, Mismatches: 48, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
101 4 0.02
103 6 0.03
104 49 0.21
105 15 0.06
106 17 0.07
107 77 0.32
108 35 0.15
109 32 0.14
110 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (107 bp):
TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTGG
AAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGG
Found at i:338607 original size:52 final size:51
Alignment explanation
Indices: 338551--338687 Score: 143
Period size: 52 Copynumber: 2.6 Consensus size: 51
338541 AAATTGGTAT
*
338551 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG-AAAATTGGCG
1 TTTTGGAAATAAAA-CGGAGTTGGAGTATCCCCGATT-AAGGAAAAATTAGCG
* ** *
338603 TTTTGAAAATAAAACCAGG-GTTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGGAAATAAAA-C-GGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
* * *
338655 TTTTAGCAATAAAACCGAGGTTGGAGTATCCCC
1 TTTTGGAAATAAAACGGA-GTTGGAGTATCCCC
338688 TCGGAAATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
50 1 0.01
51 3 0.04
52 65 0.92
53 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
TTTTGGAAATAAAACGGAGTTGGAGTATCCCCGATTAAGGAAAAATTAGCG
Found at i:338693 original size:212 final size:211
Alignment explanation
Indices: 338409--338856 Score: 623
Period size: 212 Copynumber: 2.1 Consensus size: 211
338399 GAAAATAACG
* * * * * * *
338409 GGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGAGGTTGGAGTATC
* *
338473 CCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATGGT
66 CCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATGGT
* *
338538 GAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGG
130 GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAA-GAAAATTAG
338601 CGTTTTGAAAATAAAACC
194 CGTTTTGAAAATAAAACC
* * *
338619 AGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGAGGTTGGAGTAT
1 -GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGAGGTTGGAGTAT
* * *
338684 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGT
65 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATGGT
* * *
338749 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGT
130 GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGC
*
338814 GTTTTGAAAATAAAATC
195 GTTTTGAAAATAAAACC
* * *
338831 GGAGTTAGAATATTCCCGATTGTGGA
1 GG-GTTGGAGTATCCCCGATTGTGGA
338857 GAATTGAGAA
Statistics
Matches: 209, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
211 50 0.24
212 120 0.57
213 39 0.19
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (211 bp):
GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGAGGTTGGAGTATC
CCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATGGTG
AAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGCG
TTTTGAAAATAAAACC
Found at i:338705 original size:28 final size:27
Alignment explanation
Indices: 338673--338744 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
338663 ATAAAACCGA
**
338673 GGTTGGAGTATCCCCTCGGAAATAACGG
1 GGTTGGAGTATCCCCGAGG-AATAACGG
* *
338701 GGTTGGAGTATCCCCGATGATTAACGG
1 GGTTGGAGTATCCCCGAGGAATAACGG
338728 GGTTGGAGTATCCCCGA
1 GGTTGGAGTATCCCCGA
338745 TTGTGAAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGAGGAATAACGG
Found at i:338829 original size:51 final size:53
Alignment explanation
Indices: 338733--338851 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
338723 AACGGGGTTG
* * *
338733 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
338787 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
338838 GAATATTCCCGATT
1 GAGTATCCCCGATT
338852 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:343753 original size:15 final size:16
Alignment explanation
Indices: 343733--343766 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
343723 AGTCAAAAGT
343733 AAAAACAAAACA-AAA
1 AAAAACAAAACAGAAA
*
343748 AAAAACAACACAGAAA
1 AAAAACAAAACAGAAA
343764 AAA
1 AAA
343767 GGTGCAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAACAAAACAGAAA
Found at i:344704 original size:15 final size:16
Alignment explanation
Indices: 344684--344717 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
344674 AGTCAAAAGT
344684 AAAAACAAAACA-AAA
1 AAAAACAAAACAGAAA
*
344699 AAAAACAACACAGAAA
1 AAAAACAAAACAGAAA
344715 AAA
1 AAA
344718 GGTGCAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAACAAAACAGAAA
Found at i:346141 original size:23 final size:23
Alignment explanation
Indices: 346111--346156 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
346101 GCATCTTGTC
*
346111 TCAAAGTCCATGACTCAGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
*
346134 TCAAAGTCCACGACTCCGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
346157 CCATTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (23 bp):
TCAAAGTCCACGACTCAGTGGCA
Found at i:346177 original size:34 final size:34
Alignment explanation
Indices: 346134--346257 Score: 139
Period size: 34 Copynumber: 3.7 Consensus size: 34
346124 CTCAGTGGCA
* *
346134 TCAAAGTCCACGACTCCGTGGCACCATTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCATTTTCTTT
* *
346168 TCAAAGTCCACGACTCCGTGGCACCA---TCTTT
1 TCAAAGCCCACAACTCCGTGGCACCATTTTCTTT
* *
346199 TCAAAGCCCACAAC-CCTGTGGCATCTTTTTCCTTT
1 TCAAAGCCCACAACTCC-GTGGCACCATTTT-CTTT
*
346234 TTAAAGCCCACAACTCCGTGGCAC
1 TCAAAGCCCACAACTCCGTGGCAC
346258 TCTTTTTCCT
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
30 2 0.03
31 24 0.31
34 27 0.35
35 23 0.29
36 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.28
Consensus pattern (34 bp):
TCAAAGCCCACAACTCCGTGGCACCATTTTCTTT
Found at i:346220 original size:31 final size:31
Alignment explanation
Indices: 346134--346507 Score: 129
Period size: 29 Copynumber: 12.4 Consensus size: 31
346124 CTCAGTGGCA
* *
346134 TCAAAGTCCACGACTCCGTGGCACCATTTTCTTT
1 TCAAAGCCCACAACTCCGTGGCACCA---TCTTT
* *
346168 TCAAAGTCCACGACTCCGTGGCACCATCTTT
1 TCAAAGCCCACAACTCCGTGGCACCATCTTT
**
346199 TCAAAGCCCACAAC-CCTGTGGCATCTTTTTCCTTT
1 TCAAAGCCCACAACTCC-GTGGCA-C--CAT-CTTT
*
346234 TTAAAGCCCACAACTCCGTGGCA-C-TCTTTT
1 TCAAAGCCCACAACTCCGTGGCACCATC-TTT
** * * **
346264 TC----CTTATAAGTTAGTGG---CATCTTT
1 TCAAAGCCCACAACTCCGTGGCACCATCTTT
* **
346288 TCCAAAGCCCACAAGTTAGTGG---CATCTTT
1 T-CAAAGCCCACAACTCCGTGGCACCATCTTT
* *
346317 TCCAAAGCCCACAAGTCAGTGG---CATCTTT
1 T-CAAAGCCCACAACTCCGTGGCACCATCTTT
* **
346346 TCCAAAGCCCACAAGTCAATGGCACC--CTTT
1 T-CAAAGCCCACAACTCCGTGGCACCATCTTT
* *
346376 TCCAAAGCCCACAAGTCAGTGGCACC--CTTT
1 T-CAAAGCCCACAACTCCGTGGCACCATCTTT
* *
346406 TCCAAAGCCCACAAGTCAGTGGCACC-T-TTT
1 T-CAAAGCCCACAACTCCGTGGCACCATCTTT
* *
346436 TCCAAAGCCCACAAGTCAGTGG---CATCTTT
1 T-CAAAGCCCACAACTCCGTGGCACCATCTTT
* * *
346465 TCCAAAGCCCATAAGTCAGTGG---CATCTTT
1 T-CAAAGCCCACAACTCCGTGGCACCATCTTT
346494 TCCAAAGCCCACAA
1 T-CAAAGCCCACAA
346508 GTTAGTGAGA
Statistics
Matches: 300, Mismatches: 21, Indels: 43
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.02
25 3 0.01
26 9 0.03
27 1 0.00
28 1 0.00
29 113 0.38
30 91 0.30
31 23 0.08
32 2 0.01
34 27 0.09
35 23 0.08
36 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (31 bp):
TCAAAGCCCACAACTCCGTGGCACCATCTTT
Found at i:346265 original size:65 final size:65
Alignment explanation
Indices: 346134--346257 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 65
346124 CTCAGTGGCA
* * * *
346134 TCAAAGTCCACGACTCCGTGGCACCATTTTCTTTTCAAAGTCCACGACTCCGTGGCACCATCTTT
1 TCAAAGCCCACAACTCCGTGGCACCATTTTCTTTTCAAAGCCCACAACTCCGTGGCACCATCTTT
* * *
346199 TCAAAGCCCACAAC-CCTGTGGCATCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCAC
1 TCAAAGCCCACAACTCC-GTGGCACCATTTT-CTTTTCAAAGCCCACAACTCCGTGGCAC
346258 TCTTTTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 2 0.04
65 23 0.46
66 25 0.50
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.28
Consensus pattern (65 bp):
TCAAAGCCCACAACTCCGTGGCACCATTTTCTTTTCAAAGCCCACAACTCCGTGGCACCATCTTT
Found at i:346369 original size:148 final size:145
Alignment explanation
Indices: 346236--346544 Score: 419
Period size: 148 Copynumber: 2.1 Consensus size: 145
346226 TTTCCTTTTT
* * * ** * * *
346236 AAAGCCCACAACTCCGTGGCACTCTTTTTC-CTTATAAGTTAGTGGCATC-TTTTCCAAAGCCCA
1 AAAGCCCACAACTCAGTGGCACCCTTTTCCACCCACAAGTCAGTGGCACCTTTTTCCAAAGCCCA
*
346299 CAAGTTAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCA
66 CAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCA
346364 ATGGCACCCTTTTCC
131 ATGGCACCCTTTTCC
*
346379 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTTTTCCAAAGC
1 AAAGCCCACAACTCAGTGGCACCCTTTTCC--A-CCCACAAGTCAGTGGCACCTTTTTCCAAAGC
*
346444 CCACAAGTCAGTGGCATCTTTTCCAAAGCCCATAAGTCAGTGGCATCTTTTCCAAAGCCCACAAG
63 CCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAG
* * *
346509 TTAGTGAG-A-TCTTTTCC
128 TCAATG-GCACCCTTTTCC
*
346526 AAAGCCCACAAGTCAGTGG
1 AAAGCCCACAACTCAGTGG
346545 TATCTTTTCA
Statistics
Matches: 146, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
143 26 0.18
147 40 0.27
148 79 0.54
149 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (145 bp):
AAAGCCCACAACTCAGTGGCACCCTTTTCCACCCACAAGTCAGTGGCACCTTTTTCCAAAGCCCA
CAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCA
ATGGCACCCTTTTCC
Found at i:346378 original size:30 final size:29
Alignment explanation
Indices: 346271--346644 Score: 455
Period size: 29 Copynumber: 12.6 Consensus size: 29
346261 TTTTCCTTAT
*
346271 AAGTTAGTGGCATCTTTTCCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCCAAAGCCCAC
*
346300 AAGTTAGTGGCATCTTTTCCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCCAAAGCCCAC
346329 AAGTCAGTGGCATCTTTTCCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCCAAAGCCCAC
* *
346358 AAGTCAATGGCACCCTTTTCCAAAGCCCAC
1 AAGTCAGTGGCA-TCTTTTCCAAAGCCCAC
*
346388 AAGTCAGTGGCACCCTTTTCCAAAGCCCAC
1 AAGTCAGTGGCA-TCTTTTCCAAAGCCCAC
*
346418 AAGTCAGTGGCACCTTTTTCCAAAGCCCAC
1 AAGTCAGTGGCATC-TTTTCCAAAGCCCAC
*
346448 AAGTCAGTGGCATCTTTTCCAAAGCCCAT
1 AAGTCAGTGGCATCTTTTCCAAAGCCCAC
346477 AAGTCAGTGGCATCTTTTCCAAAGCCCAC
1 AAGTCAGTGGCATCTTTTCCAAAGCCCAC
*
346506 AAGTTAGTGAG-ATCTTTTCCAAAGCCCAC
1 AAGTCAGTG-GCATCTTTTCCAAAGCCCAC
* * * *
346535 AAGTCAGTGGTATCTTTTCAAAAGTCCAT
1 AAGTCAGTGGCATCTTTTCCAAAGCCCAC
* * **
346564 GACTCAGTGGCATCCTTTTCTTCAAAATCCAC
1 AAGTCAGTGGCAT-CTTTTC--CAAAGCCCAC
* * *
346596 GACTCAGTGGCGT-TTTGTCTCAAAGCCCAC
1 AAGTCAGTGGCATCTTT-TC-CAAAGCCCAC
* *
346626 AACTCTGTGGCACTCTTTT
1 AAGTCAGTGGCA-TCTTTT
346645 TCCCTTTTAA
Statistics
Matches: 311, Mismatches: 24, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
28 1 0.00
29 171 0.55
30 113 0.36
31 4 0.01
32 22 0.07
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (29 bp):
AAGTCAGTGGCATCTTTTCCAAAGCCCAC
Found at i:346603 original size:148 final size:148
Alignment explanation
Indices: 346276--346644 Score: 442
Period size: 148 Copynumber: 2.5 Consensus size: 148
346266 CTTATAAGTT
* * * *
346276 AGTGGCATC-TTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGC
1 AGTGGCACCTTTTTCCAAAACCCACAACTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGC
346340 ATCTTTTCCAAAGCCCACAAGTCAATGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTT
66 ATCTTTTCCAAAGCCCACAAGTCAATGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTT
* *
346405 TTCCAAAGCCCACAAGTC
131 TTCAAAAGCCCACAACTC
* * *
346423 AGTGGCACCTTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCATAAGTCAGTGGC
1 AGTGGCACCTTTTTCCAAAACCCACAACTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGC
* * * * *
346488 ATCTTTTCCAAAGCCCACAAGTTAGTGAG-A-TCTTTTCCAAAGCCCACAAGTCAGTGGTA-TCT
66 ATCTTTTCCAAAGCCCACAAGTCAATG-GCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCCT
* **
346550 TTTCAAAAGTCCATGACTC
130 TTTCAAAAGCCCACAACTC
* * * * * *
346569 AGTGGCATCCTTTTCTTCAAAATCCACGACTCAGTGGCGT-TTTGTCTCAAAGCCCACAACTCTG
1 AGTGGCA-CCTTTT-TCCAAAACCCACAACTCAGTGGCATCTTT-TC-CAAAGCCCACAAGTCAG
346633 TGGCACTCTTTT
62 TGGCA-TCTTTT
346645 TCCCTTTTAA
Statistics
Matches: 193, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
146 23 0.12
147 44 0.23
148 100 0.52
149 20 0.10
150 6 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (148 bp):
AGTGGCACCTTTTTCCAAAACCCACAACTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGC
ATCTTTTCCAAAGCCCACAAGTCAATGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTT
TTCAAAAGCCCACAACTC
Found at i:346762 original size:33 final size:33
Alignment explanation
Indices: 346707--347178 Score: 542
Period size: 33 Copynumber: 14.5 Consensus size: 33
346697 TCATCTTTCT
* *
346707 CCTT-TTCAAAAGCCCACGCAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
346739 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* * * *
346772 CCTTTTTCAAAAGCCCACACAAGTCGATGACAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
346805 CCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
346838 CCTTTTTCTAAAGCCCATACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
346871 CCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* * *
346904 CCTTTTTCTAAAGCCCATATAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
346937 CCCTTC-TCTAAAGCCCACACAAGCCGGTGCCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
346970 CCTTTTTCTAAAGCCCACACAAGTCAGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
347003 CCTT-TCTCTAAAGCCCATACAAGTCGGTGGCAA
1 CCTTCT-TCTAAAGCCCACACAAGTCGGTGGCAA
* ** *
347036 CC--CTTCTCAAAGCCCACACAAGTTGGCAGTAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
* *
347068 TCC--CCTCTTAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
347100 CC--CTTCTCAAAGCCCACACAAGTCGTTAGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
*
347132 CCATTC-TCTAAAGCCCACACAAGTCGATGGCAA
1 CC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAA
347165 CC--CTTCT-AAGCCCA
1 CCTTCTTCTAAAGCCCA
347179 ATATCGCTGG
Statistics
Matches: 379, Mismatches: 45, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.02
31 12 0.03
32 79 0.21
33 264 0.70
34 15 0.04
35 1 0.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (33 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:346786 original size:66 final size:66
Alignment explanation
Indices: 346709--347166 Score: 629
Period size: 66 Copynumber: 7.0 Consensus size: 66
346699 ATCTTTCTCC
* *
346709 TTTTCAAAAGCCCACGCAAGTCGGTGGCAA-CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAAC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAAC
346773 CT
65 CT
* * *
346775 TTTTCAAAAGCCCACACAAGTCGATGACAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
346840 T
66 T
*
346841 TTTTCTAAAGCCCATACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
346906 T
66 T
* * * *
346907 TTTTCTAAAGCCCATATAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGCCGGTGCCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
346972 T
66 T
* * *
346973 TTTTCTAAAGCCCACACAAGTCAGTGGCAACCTTTCTCTAAAGCCCATACAAGTCGGTGGCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
*
347038 C
66 T
* * ** * *
347039 TTCTC-AAAGCCCACACAAGTTGGCAGTAATCCC--CTCTTAAGCCCACACAAGTCGGTGGCAAC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAA-CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAC
*
347101 CC
65 CT
* * * * *
347103 TTCTC-AAAGCCCACACAAGTCGTTAGCAACCATTCTCTAAAGCCCACACAAGTCGATGGCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
347167 CTTCTAAGCC
Statistics
Matches: 354, Mismatches: 34, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
63 2 0.01
64 54 0.15
65 47 0.13
66 246 0.69
67 5 0.01
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (66 bp):
TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
T
Found at i:347239 original size:49 final size:49
Alignment explanation
Indices: 347184--347874 Score: 827
Period size: 49 Copynumber: 14.5 Consensus size: 49
347174 GCCCAATATC
* * * *
347184 GCTGGCCTTGAATCAGCATATTGGCACTTTTATCATTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
347233 GTTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
347276 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAAGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
347325 GCTAGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
*
347368 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
347417 GCTGGCCTTGAATCAGCACATTGGCA-C--CA---TTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* *
347460 GCTGGCCTTGAATCAGCATATTGGCACCTCCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
*
347509 GCTGGCCTTGAATCAGCACATTGGCACCTTCATTTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
347558 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCGTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* * * * *
347607 GCTGGCCTTAAATCAGTATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATGTA
* * *
347659 GCTGGCCTTGAATCAACACATTGGCACCTTCACCTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* * * *
347708 GCTGACCTTGAATCAGCATATTGGCACCTCCTTCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
*
347757 GCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
* * *
347800 GCTGGCCTTGAATTAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 GCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATGTA
347852 GCTGGCCTTGAATCAGCACATTG
1 GCTGGCCTTGAATCAGCACATTG
347875 ACATCTTTTT
Statistics
Matches: 549, Mismatches: 63, Indels: 57
0.82 0.09 0.09
Matches are distributed among these distances:
43 150 0.27
44 1 0.00
45 2 0.00
46 4 0.01
47 2 0.00
48 1 0.00
49 310 0.56
50 2 0.00
51 1 0.00
52 76 0.14
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
Found at i:347333 original size:92 final size:92
Alignment explanation
Indices: 347166--347830 Score: 763
Period size: 92 Copynumber: 7.1 Consensus size: 92
347156 CGATGGCAAC
* * * * *
347166 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTATCATTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAAG
*
347231 TAGTTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
347259 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAAGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAAGT
*
347324 AGCTAGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
347351 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAAGT
347416 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
347443 CCATTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAAGT
347508 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
347535 CCTTCATTTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCGTTAAGTC
1 -C--C---TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
* * * *
347600 CAATA-TCGCTGGCCTTAAATCAGTATATTGGCGCCTTTGTCA
60 CAA-AGTAGCTGGCCTTGAATCAGCACATT---G-----G-CA
* * * * *
347642 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCACCTTTAAGTCCAATA-
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAA-AG
* *
347706 TAGCTGACCTTGAATCAGCATATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * *
347734 CCTCCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTC
1 ----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
* *
347793 CAATA-TAGCTGGCCTTGAATTAGCATATTGGCA
60 CAA-AGTAGCTGGCCTTGAATCAGCACATTGGCA
347826 CCTTT
1 CCTTT
347831 TCCATCTTTA
Statistics
Matches: 514, Mismatches: 36, Indels: 51
0.86 0.06 0.08
Matches are distributed among these distances:
86 4 0.01
88 1 0.00
92 303 0.59
93 6 0.01
94 1 0.00
95 1 0.00
98 115 0.22
101 79 0.15
104 1 0.00
106 1 0.00
107 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAAGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:347883 original size:52 final size:54
Alignment explanation
Indices: 347784--347905 Score: 158
Period size: 52 Copynumber: 2.3 Consensus size: 54
347774 ACATTGGCAC
* * *
347784 CTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTTCTCAT
* * *
347836 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CCTTTTTCTCAT
*
347891 CTTTAAGCCCAATAT
1 CTTTAAGTCCAATAT
347906 CATTGGCCGT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 37 0.64
53 1 0.02
54 5 0.09
55 15 0.26
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTTCTCAT
Found at i:347897 original size:199 final size:196
Alignment explanation
Indices: 347260--348130 Score: 759
Period size: 199 Copynumber: 4.4 Consensus size: 196
347250 ACATTGGCAC
* *
347260 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-TCATCTTTAAGTCCAA-AG
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAATA-
* *
347323 TAGCT-AGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAAT
65 TAGCTGA-CCTTGAATCAGCACATTGGCACCTCCTTCTTTAAGTCCAATGTAGCTGGCCTTGAAT
* * *
347381 CAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---
129 CAGCACATTGGCA-C--C-TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
347443 ---CCA-
190 TTTCCAT
* * *
347446 --TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC-CATCTTTAAGTCCAATGT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAATAT
* *
347508 AGCTGGCCTTGAATCAGCACATTGGCACCTTCATT-TTTAAGTCCAATGTAGCTGGCCTTGAATC
66 AGCTGACCTTGAATCAGCACATTGGCACC-TCCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATC
* * * *
347572 AGCACATTGGCACCTTCATCGTTAAGTCCAATATCGCTGGCCTTAAATCAGTATATTGGCGCCTT
130 AGCACATTGGCACC-TC-T--TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
347637 TGT-CAT
191 T-TCCAT
* *
347643 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCT-TCACCTTTAAGTCCAATAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAATAT
*
347707 AGCTGACCTTGAATCAGCATATTGGCACCTCCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
66 AGCTGACCTTGAATCAGCACATTGGCACCTCCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
*
347772 GCACATTGGCA-C-CTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTTTCCA
131 GCACATTGGCACCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCA
347835 T
196 T
* * * * *
347836 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----CTCTCATCTTTAAGTCC
* * * * * *
347901 AATATCA-TTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCACCTTTATG
61 AATAT-AGCTGACCTTGAATCAGCACATTGG---------CAC----CTC--CTT---CTTTAAG
* * * *
347965 TCCAATATAGCTGGCCTTTAATCAGCATATTGGCACCTACTTTTTAAGTCCAATGTAGCTGGCCT
107 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT-C--TTTAAGTCCAATATAGCTGGCCT
*
348030 TGAATCAGCACATTGGCA-------C--
169 TGAATCAGCATATTGGCACCTTTTCCAT
* * * * **
348049 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-TCTTCTTTAAGTCCAATGC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAATAT
*
348113 AGCTGGCCTTGAATCAGC
66 AGCTGACCTTGAATCAGC
348131 TTGTTCCTGA
Statistics
Matches: 572, Mismatches: 56, Indels: 93
0.79 0.08 0.13
Matches are distributed among these distances:
184 84 0.15
187 3 0.01
188 1 0.00
189 1 0.00
190 72 0.13
192 1 0.00
193 81 0.14
194 1 0.00
195 1 0.00
196 3 0.01
198 6 0.01
199 160 0.28
200 1 0.00
206 1 0.00
207 28 0.05
208 4 0.01
212 4 0.01
213 38 0.07
214 3 0.01
215 1 0.00
217 38 0.07
218 1 0.00
220 1 0.00
222 38 0.07
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (196 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCTCATCTTTAAGTCCAATAT
AGCTGACCTTGAATCAGCACATTGGCACCTCCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
GCACATTGGCACCTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCA
T
Found at i:348016 original size:48 final size:47
Alignment explanation
Indices: 347959--348130 Score: 235
Period size: 43 Copynumber: 3.7 Consensus size: 47
347949 CATCTTCACC
* *
347959 TTTATGTCCAATATAGCTGGCCTTTAATCAGCATATTGGCACCTACTT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-CTT
* *
348007 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-C--
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTT
348050 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCTT
**
348098 CTTTAAGTCCAATGCAGCTGGCCTTGAATCAGC
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGC
348131 TTGTTCCTGA
Statistics
Matches: 110, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
43 39 0.35
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 37 0.34
49 30 0.27
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (47 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTT
Found at i:349138 original size:32 final size:32
Alignment explanation
Indices: 349083--349183 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
349073 TTCAATGATT
349083 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
349116 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
349148 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
349180 TGTA
1 TGTA
349184 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:349140 original size:19 final size:18
Alignment explanation
Indices: 349081--349176 Score: 86
Period size: 13 Copynumber: 5.7 Consensus size: 18
349071 ATTTCAATGA
349081 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
349100 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
349116 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
349132 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
349148 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
349164 TTTTGTATCGATA
1 -TTTGTATCGATA
349177 TAATGTAAGC
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 22 0.34
20 12 0.19
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:349298 original size:52 final size:52
Alignment explanation
Indices: 349254--349382 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
349244 CACTGATCTT
349254 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
349306 TGTATCGACACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
349358 TGTATCGATACATGTAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
349383 TCATACTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:355489 original size:15 final size:16
Alignment explanation
Indices: 355469--355502 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
355459 AGTCAAAAGT
355469 AAAAACAAAACA-AAA
1 AAAAACAAAACAGAAA
*
355484 AAAAACAACACAGAAA
1 AAAAACAAAACAGAAA
355500 AAA
1 AAA
355503 GGTACAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAACAAAACAGAAA
Found at i:356987 original size:31 final size:32
Alignment explanation
Indices: 356920--356988 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
356910 CTCAGTGGCA
* * *
356920 TCAAAGTCCATGAGTCCGTGGCACCTTTTTCTTT
1 TCAAAGTCCATGACTCCGAGGCACC--TATCTTT
356954 TCAAAGTCCATGACTCCGAGGCACC-ATCTTT
1 TCAAAGTCCATGACTCCGAGGCACCTATCTTT
356985 TCAA
1 TCAA
356989 TGCCCACAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 9 0.28
34 23 0.72
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (32 bp):
TCAAAGTCCATGACTCCGAGGCACCTATCTTT
Found at i:357020 original size:35 final size:35
Alignment explanation
Indices: 356981--357142 Score: 126
Period size: 35 Copynumber: 4.7 Consensus size: 35
356971 GAGGCACCAT
* **
356981 CTTTTCAATGCCCACAACTTTGTGGCA-TCTTTTTC
1 CTTTTAAAT-CCCACAACTCCGTGGCACTCTTTTTC
357016 CTTTTTAAATCCCACAACTCCGTGGCACTCTTTTTC
1 C-TTTTAAATCCCACAACTCCGTGGCACTCTTTTTC
* * *
357052 CTTATAAGT-CCACAACTCCGTGGC-CTC----AC
1 CTTTTAAATCCCACAACTCCGTGGCACTCTTTTTC
*
357081 CATTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-
1 C-TTTTAAATCCCACAACTCCGTGGCACTCTTTTTC
* * *
357115 CTTTTCAAAAGCCCACAAGTCAGTGGCA
1 CTTTT--AAATCCCACAACTCCGTGGCA
357143 TCATTTCCAA
Statistics
Matches: 104, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
29 2 0.02
30 5 0.05
31 16 0.15
32 1 0.01
33 7 0.07
34 16 0.15
35 41 0.39
36 16 0.15
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (35 bp):
CTTTTAAATCCCACAACTCCGTGGCACTCTTTTTC
Found at i:357159 original size:29 final size:29
Alignment explanation
Indices: 357114--357505 Score: 498
Period size: 29 Copynumber: 13.2 Consensus size: 29
357104 GGCACCTTTT
*
357114 TCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
*
357143 TCATTTCCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
*
357172 TCTTTTCCAAAGCTCACAAGTCAGTGGCA
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
*
357201 TCTTTTCCAAAGCCCACAAGTCAGTTGCA
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
*
357230 CCCTTTTCCAAAGCCCACAAGTCAGTGGCA
1 -TCTTTTCCAAAGCCCACAAGTCAGTGGCA
*
357260 CCCTTTTCCAAAGCCCACAAGTCAGTGGCA
1 -TCTTTTCCAAAGCCCACAAGTCAGTGGCA
*
357290 TCTTTTCCAAAGCCCATAAGTCAGTGGCA
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
357319 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
*
357348 TCTTTTCCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
* *
357377 CCCTTTTCCAAAAGCCCACAAGTCAGTGGTA
1 -TCTTTTCC-AAAGCCCACAAGTCAGTGGCA
* * ** *
357408 TCTTTTCAAAAGTCCATGACTCAGTGGCA
1 TCTTTTCCAAAGCCCACAAGTCAGTGGCA
** * *
357437 TCCTTTTCTTCAAAATCCACGACTCAGTGGCA
1 T-CTTTTC--CAAAGCCCACAAGTCAGTGGCA
* *
357469 T-TTTGTCTCAAAGCCCACAACTCCGTGGCA
1 TCTTT-TC-CAAAGCCCACAAGTCAGTGGCA
357499 CTCTTTT
1 -TCTTTT
357506 TCCCTTTTAA
Statistics
Matches: 325, Mismatches: 29, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
29 181 0.56
30 98 0.30
31 23 0.07
32 23 0.07
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
TCTTTTCCAAAGCCCACAAGTCAGTGGCA
Found at i:357290 original size:118 final size:117
Alignment explanation
Indices: 357115--357505 Score: 502
Period size: 118 Copynumber: 3.3 Consensus size: 117
357105 GCACCTTTTT
* * *
357115 CTTTTCAAAAGCCCACAAGTCAGTGGCA-TCATTTCCAAAGCCCACAAGTCAGTGGCATCTTTTC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTC
*
357179 CAAAGCTCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTTGCACC
66 CAAAGCTCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCA-C
357232 CTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTC
1 CTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTC
* * *
357297 CAAAGCCCATAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAT
66 CAAAGCTCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAC
* *
357349 CTTTTCCAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAAGCCCACAAGTCAGTGGTATCTTTT
1 CTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC-AAAGCCCACAAGTCAGTGGCATCTTTT
* * ** * *
357414 CAAAAG-TC-CATGACTCAGTGGCATCCTTTTCTTCAAAATCCACGACTCAGTGGCA-
65 CCAAAGCTCACA--AGTCAGTGGCAT-CTTTTC--CAAAGCCCACAAGTCAGTGGCAC
* * * *
357469 TTTTGTCTCAAAGCCCACAACTCCGTGGCACTCTTTT
1 CTTT-TC-CAAAGCCCACAAGTCAGTGGCACCCTTTT
357506 TCCCTTTTAA
Statistics
Matches: 243, Mismatches: 22, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
116 1 0.00
117 64 0.26
118 124 0.51
119 6 0.02
120 3 0.01
121 20 0.08
122 25 0.10
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (117 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTC
CAAAGCTCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAC
Found at i:357359 original size:147 final size:147
Alignment explanation
Indices: 357115--357505 Score: 543
Period size: 147 Copynumber: 2.6 Consensus size: 147
357105 GCACCTTTTT
*
357115 CTTTTCAAAAGCCCACAAGTCAGTGGCATCATTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
1 CTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
357180 AAAGCTCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTTGCACCCTTTTCC-AAAGC
66 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAAGC
357244 CCACAAGTCAGTGGCACC
131 CCACAAGTCAGTGGCA-C
* *
357262 CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCATAAGTCAGTGGCATCTTTTCC
1 CTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
*
357327 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTTAGTGGCACCCTTTTCCAAAAGC
66 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAAGC
* *
357392 CCACAAGTCAGTGGTAT
131 CCACAAGTCAGTGGCAC
* ** * ** * *
357409 CTTTTCAAAAGTCCATGACTCAGTGGCATCCTTTTCTTCAAAATCCACGACTCAGTGGCAT-TTT
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAT-CTTTTC--CAAAGCCCACAAGTCAGTGGCATCTTT
* *
357473 GTCTCAAAGCCCACAACTCCGTGGCACTCTTTT
63 -TC-CAAAGCCCACAAGTCAGTGGCA-TCTTTT
357506 TCCCTTTTAA
Statistics
Matches: 217, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
147 142 0.65
148 26 0.12
149 3 0.01
150 20 0.09
151 20 0.09
152 6 0.03
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (147 bp):
CTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAAGC
CCACAAGTCAGTGGCAC
Found at i:357626 original size:33 final size:33
Alignment explanation
Indices: 357568--357968 Score: 530
Period size: 33 Copynumber: 12.2 Consensus size: 33
357558 GAATCTTTCT
* * *
357568 CCTT-TTCAAAAGCCCACGCACGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
357600 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* * *
357633 CATTTTTCAAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
357666 CCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
357699 CCTTTTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
357732 CCCTTC-TCTAAAGCCCACACAATTCGGTGGCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* * *
357765 CCTTTTTCTAAAGCCCACACAAGTCGGCGGTAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
357798 CCCTTCTT-TAAAGGCCACACAAGTCGATGGCAA
1 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* * *
357831 CCTTTTTCTACAGCCCATACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
357864 CCTT-TCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCT-TCTAAAGCCCACACAAGTCGGTGGCAA
*
357897 CC--CTTCTCAAAGCCCACACAAGTCGTTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
357929 CCATTC-TCTAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAA
357962 CCCTTCT
1 -CCTTCT
357969 AAGCCTAATA
Statistics
Matches: 324, Mismatches: 30, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
31 3 0.01
32 45 0.14
33 257 0.79
34 18 0.06
35 1 0.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (33 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:357640 original size:66 final size:66
Alignment explanation
Indices: 357570--357963 Score: 603
Period size: 66 Copynumber: 6.0 Consensus size: 66
357560 ATCTTTCTCC
* * *
357570 TTTTCAAAAGCCCACGCACGTCGGTGGCAA-CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAAC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAAC
*
357634 AT
65 CT
*
357636 TTTTCAAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
357701 T
66 T
*
357702 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAATTCGGTGGCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
357767 T
66 T
* * * * *
357768 TTTTCTAAAGCCCACACAAGTCGGCGGTAACCCTTCTTTAAAGGCCACACAAGTCGATGGCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
357833 T
66 T
* * *
357834 TTTTCTACAGCCCATACAAGTCGGTGGCAACCTTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
*
357899 C
66 T
* * *
357900 TTCTC-AAAGCCCACACAAGTCGTTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
357964 CTTCTAAGCC
Statistics
Matches: 302, Mismatches: 25, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
65 55 0.18
66 242 0.80
67 5 0.02
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (66 bp):
TTTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
T
Found at i:358040 original size:49 final size:48
Alignment explanation
Indices: 357983--358429 Score: 537
Period size: 49 Copynumber: 9.4 Consensus size: 48
357973 CTAATATCGT
*
357983 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACC-TTATCTTTAAGTCCAATGTAGC
* * *
358032 TGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATCGT
1 TGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGTCCAATGTAGC
* * *
358075 TGGCCTTGAATCGGCATATTGGCACCTTCATCTTTAAATCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACCTT-ATCTTTAAGTCCAATGTAGC
* *
358124 TGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGTCCAATGTAGC
* *
358167 TGGTCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACCTT-ATCTTTAAGTCCAATGTAGC
* *
358216 TGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGTCCAATGTAGC
* *
358259 TGGCCTTGAATCAGCATATTGGCATCTTTATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCA-CCTTATCTTTAAGTCCAATGTAGC
* *
358308 TGGCCTTGAATCGGCACATTGGCACCTTCATCTTTAAGTCCAATATAGC
1 TGGCCTTGAATCAGCACATTGGCACCTT-ATCTTTAAGTCCAATGTAGC
* *
358357 TGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGC
1 TGGCCTTGAATCAGCACATTGGCACC--TT--ATCTTTAAGTCCAATGTAGC
358409 TGGCCTTGAATCAGCACATTG
1 TGGCCTTGAATCAGCACATTG
358430 ACATCTTTTT
Statistics
Matches: 340, Mismatches: 36, Indels: 41
0.82 0.09 0.10
Matches are distributed among these distances:
43 113 0.33
44 2 0.01
48 6 0.02
49 178 0.52
51 2 0.01
52 39 0.11
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (48 bp):
TGGCCTTGAATCAGCACATTGGCACCTTATCTTTAAGTCCAATGTAGC
Found at i:358132 original size:92 final size:92
Alignment explanation
Indices: 357975--358429 Score: 730
Period size: 92 Copynumber: 4.8 Consensus size: 92
357965 TTCTAAGCCT
* *
357975 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
358040 AATCAGCACATTGGCACCTTTAAGTCC
66 AATCAGCACATTGGCACCTTTAAGTCC
* * *
358067 AATATCGTTGGCCTTGAATCGGCATATTGGCACCTTCATCTTTAAATCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
358132 AATCAGCACATTGGCACCTTTAAGTCC
66 AATCAGCACATTGGCACCTTTAAGTCC
*
358159 AATATCGCTGGTCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
358224 AATCAGCACATTGGCACCTTTAAGTCC
66 AATCAGCACATTGGCACCTTTAAGTCC
* *
358251 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
*
358316 AATCGGCACATTGGCACCTTCATCTTTAAGTCC
66 AATCAGCACATTGGCA----C--CTTTAAGTCC
* *
358349 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTAGCTGGCC
358414 TTGAATCAGCACATTG
63 TTGAATCAGCACATTG
358430 ACATCTTTTT
Statistics
Matches: 338, Mismatches: 16, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
92 254 0.75
96 1 0.00
98 42 0.12
100 2 0.01
101 39 0.12
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (92 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
AATCAGCACATTGGCACCTTTAAGTCC
Found at i:358474 original size:55 final size:55
Alignment explanation
Indices: 358241--358684 Score: 282
Period size: 49 Copynumber: 8.6 Consensus size: 55
358231 ACATTGGCAC
*
358241 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC----TT-T-AT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * *
358290 CTTTAAGTCCAATGTAGCTGGCCTTGAATCGGCACATTGGCA-C----CT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
*
358339 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * *
358391 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* * * * *
358446 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC--T-T---TTTTCTCA---T
* * *
358510 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCA-C---CTACT--T
1 ---CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
** * *
358562 CTTTAAGTTTAATGTAGCTGGCCTTGAATCAGCACATTGGCA----------C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
* *
358605 CTTTAAGTGCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C---CTTCT--T
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
*
358654 CTTTAAGTCCAATGTAGCTGGCCTTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
358685 ACTTGTTCCT
Statistics
Matches: 325, Mismatches: 42, Indels: 56
0.77 0.10 0.13
Matches are distributed among these distances:
43 38 0.12
48 3 0.01
49 146 0.45
52 43 0.13
53 1 0.00
54 5 0.02
55 38 0.12
57 4 0.01
58 1 0.00
61 8 0.02
64 1 0.00
66 1 0.00
67 36 0.11
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTTCTCAT
Found at i:358482 original size:107 final size:99
Alignment explanation
Indices: 357975--358492 Score: 603
Period size: 92 Copynumber: 5.4 Consensus size: 99
357965 TTCTAAGCCT
* *
357975 AATATCGTTGGCCTTGAATCAGCATATTGGCA-CCTTTATCTTTAAGTCCAATGTAGCTGGCCTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTTATCTTTAAGTCCAATGTAGCTGGCCTT
*
358039 GAATCAGCACATTGGCA----C--CTTTAAGTCC
66 GAATCAGCACATTGACACCTTCATCTTTAAGTCC
* * * * *
358067 AATATCGTTGGCCTTGAATCGGCATATTGGCA-CCTTCATCTTTAAATCCAATGTAGCTGGCCTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTTATCTTTAAGTCCAATGTAGCTGGCCTT
*
358131 GAATCAGCACATTGGCA----C--CTTTAAGTCC
66 GAATCAGCACATTGACACCTTCATCTTTAAGTCC
* * *
358159 AATATCGCTGGTCTTGAATCAGCATATTGGCA-CCTTCATCTTTAAGTCCAATGTAGCTGGCCTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTTATCTTTAAGTCCAATGTAGCTGGCCTT
*
358223 GAATCAGCACATTGGCA----C--CTTTAAGTCC
66 GAATCAGCACATTGACACCTTCATCTTTAAGTCC
358251 AATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTTATCTTTAAGTCCAATGTAGCTGGCCTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTTATCTTTAAGTCCAATGTAGCTGGCCTT
* *
358315 GAATCGGCACATTGGCACCTTCATCTTTAAGTCC
66 GAATCAGCACATTGACACCTTCATCTTTAAGTCC
* * *
358349 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTT--ATCTTTAAGTCCAATGTAGCTGGCC
* *
358414 TTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCC
64 TTGAATCAGCACATTGACA-C----CT-TCATCTTTAAGTCC
* * *
358456 AATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTT
358493 ATCACTTTTC
Statistics
Matches: 388, Mismatches: 22, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
92 253 0.65
93 1 0.00
96 1 0.00
98 42 0.11
99 3 0.01
101 41 0.11
102 1 0.00
106 1 0.00
107 45 0.12
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (99 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTTATCTTTAAGTCCAATGTAGCTGGCCTT
GAATCAGCACATTGACACCTTCATCTTTAAGTCC
Found at i:358668 original size:92 final size:92
Alignment explanation
Indices: 358510--358684 Score: 305
Period size: 92 Copynumber: 1.9 Consensus size: 92
358500 TTCTCATCTT
**
358510 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTACTTCTTTAAGTTTAAT
1 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTACTTCTTTAAGTCCAAT
358575 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * *
358602 CACCTTTAAGTGCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTACTTCTTTAAGTCCAAT
358667 GTAGCTGGCCTTGAATCA
66 GTAGCTGGCCTTGAATCA
358685 ACTTGTTCCT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTACTTCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGG
Found at i:359677 original size:13 final size:13
Alignment explanation
Indices: 359659--359747 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
359649 CATAAAGTGT
359659 TGTATCGATACAA
1 TGTATCGATACAA
359672 TGTATCGATACATTA
1 TGTATCGATACA--A
359687 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
359704 TGTATCGATACATTA
1 TGTATCGATACA--A
359719 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
359736 TGTATCGATACA
1 TGTATCGATACA
359748 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 36 0.56
15 2 0.03
17 2 0.03
19 24 0.38
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:359695 original size:32 final size:32
Alignment explanation
Indices: 359639--359771 Score: 230
Period size: 32 Copynumber: 4.1 Consensus size: 32
359629 TTCAATGATT
359639 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
359672 TGTATCGATACATTAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
359704 TGTATCGATACATTAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
359736 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
359768 TGTA
1 TGTA
359772 AGCTACTGCC
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 84 0.87
33 13 0.13
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:359696 original size:19 final size:17
Alignment explanation
Indices: 359637--359766 Score: 95
Period size: 19 Copynumber: 7.8 Consensus size: 17
359627 ATTTCAATGA
359637 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT--AG
359656 TGTTGTATCGATACA-A-
1 T-TTGTATCGATACATAG
359672 --TGTATCGATACATTAG
1 TTTGTATCGATACA-TAG
359688 TGTTGTATCGATACA-A-
1 T-TTGTATCGATACATAG
359704 --TGTATCGATACATTAG
1 TTTGTATCGATACA-TAG
359720 TGTTGTATCGATACA-A-
1 T-TTGTATCGATACATAG
359736 --TGTATCGATACATAAG
1 TTTGTATCGATACAT-AG
359752 TTTTGTATCGATACA
1 -TTTGTATCGATACA
359767 ATGTAAGCTA
Statistics
Matches: 92, Mismatches: 0, Indels: 38
0.71 0.00 0.29
Matches are distributed among these distances:
13 36 0.39
15 3 0.03
17 3 0.03
19 37 0.40
20 13 0.14
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (17 bp):
TTTGTATCGATACATAG
Found at i:359827 original size:13 final size:13
Alignment explanation
Indices: 359809--359833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
359799 ACTACCCAAA
359809 TGTATCGATACAT
1 TGTATCGATACAT
359822 TGTATCGATACA
1 TGTATCGATACA
359834 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:359881 original size:52 final size:52
Alignment explanation
Indices: 359846--359970 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
359836 GATCTTTGTC
359846 TCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTA
1 TCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTA
* * * * *
359898 TCGACACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAAGGTA
1 TCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTA
359950 TCGATACATGCAGGCAAATTT
1 TCGATACATGCAGGCAAATTT
359971 TCATATTTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (52 bp):
TCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAATGTA
Found at i:363284 original size:123 final size:123
Alignment explanation
Indices: 363064--363729 Score: 861
Period size: 123 Copynumber: 5.5 Consensus size: 123
363054 TCGGTAGCCC
* * * * *
363064 AGTCCTCAAATAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCTAGT
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGT
* * *
363129 CCTTAAAAAGCAGGACACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
65 CCTCAAAAAGCAGGACGCCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
363188 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCCTCCAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTC
*
363253 CTCAAAAAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
66 CTCAAAAAGCAGGACGCCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
363311 AGTCCTCAAAGGGCAAGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCTAGT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGT
* * *
363376 CTTCAAAAAGCAGGATGCCTTTTTTTCCTTTTAAAGCCCAGACAAGTTGGTGGCACCTTT
65 CCTCAAAAAGCAGGACGCC-TTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * * *
363436 AGTCCTCAAAGAGTAGGACG------CCTTTCAAAGCCCACATAAGTTGGTAGCACCTTTTAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTC
* * **
363495 CTCAAAGAGTAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCC
66 CTCAAAAAGCAGGACGCCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* * *
363552 AGTCCTCAAAGAGCAGGACGCATTTTCC-TCCTAAAGCCCACACAAGTTGGTGGCACCATCTAGT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTC-AAAGCCCACACAAGTTGGTGGCACCCTCTAGT
* * * *
363616 CCTCAAAGAGCAGAACG--TCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGTC-CCTTCT
65 CCTCAAAAAGCAGGACGCCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG-CACCTT-T
* * *
363674 AGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAC
363730 TTCCCAGTCA
Statistics
Matches: 482, Mismatches: 45, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
115 32 0.07
116 22 0.05
118 46 0.10
119 2 0.00
121 5 0.01
122 124 0.26
123 125 0.26
124 71 0.15
125 55 0.11
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (123 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTCTAGTC
CTCAAAAAGCAGGACGCCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:363753 original size:61 final size:61
Alignment explanation
Indices: 363064--363749 Score: 818
Period size: 61 Copynumber: 11.2 Consensus size: 61
363054 TCGGTAGCCC
* * * * * *
363064 AGTCCTCAAATAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
363126 AGTCCTTAAAAAGCAGGACACCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT-T
1 AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
363188 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* *
363249 AGTCCTCAAAAAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT-T
1 AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
363311 AGTCCTCAAAGGGCAAGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
363373 AGTCTTCAAAAAGCAGGATGCCTTTTTTTCCTTTTAAAGCCCAGACAAGTTGGTGGCACCTT-T
1 AGTCCTCAAAGAGCAGGACGCC---TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * * *
363436 AGTCCTCAAAGAGTAGGACGCC-TTT-C----AAAGCCCACATAAGTTGGTAGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
363491 AGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* ** *
363552 AGTCCTCAAAGAGCAGGACGCATTTTCCTCCTAAAGCCCACACAAGTTGGTGGCACCATCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
* * *
363613 AGTCCTCAAAGAGCAGAACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGTC-CCTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG-CACCTTCT
* * *
363674 AGTCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CT
*
363735 AGTCATCAAAGAGCA
1 AGTCCTCAAAGAGCA
363750 AGACACTCTT
Statistics
Matches: 535, Mismatches: 69, Indels: 41
0.83 0.11 0.06
Matches are distributed among these distances:
54 24 0.04
55 23 0.04
56 3 0.01
57 1 0.00
58 1 0.00
59 3 0.01
60 46 0.09
61 240 0.45
62 75 0.14
63 77 0.14
64 32 0.06
65 10 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
Found at i:363873 original size:62 final size:62
Alignment explanation
Indices: 363773--363977 Score: 258
Period size: 62 Copynumber: 3.4 Consensus size: 62
363763 TTTCGCCCTT
* ** * * *
363773 TAGTCCTCAAGGAGCAGGATGCCTTTTCCTTTCGAAGCCCACACAAGTCGGTGGCACCTTTC
1 TAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
363835 TAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTC-AAGCCCACACAAGTTGGTGGCACCTTT-
1 TAGTCCTCAAAGAGCAGGACACC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
** * *
363896 TAGTCCTCAGGGAGCAGGGCACCTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCACC--TC
1 TAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
363955 ATAGTCCTCAAAGAGTAGGACAC
1 -TAGTCCTCAAAGAGCAGGACAC
363978 ACCTTATTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
58 1 0.01
59 5 0.04
60 45 0.36
61 20 0.16
62 46 0.37
63 9 0.07
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (62 bp):
TAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:363938 original size:222 final size:221
Alignment explanation
Indices: 363552--363969 Score: 563
Period size: 222 Copynumber: 1.9 Consensus size: 221
363542 GGCACCCTCC
*
363552 AGTCCTCAAAGAGCAGGACGCATTTTCCTCCTAAAGCCCACACAAGTTGGTGGCACCATCTAGTC
1 AGTCCTCAAAGAGCAGGACGCATTTTCCTCCTAAAGCCCACACAAGTCGGTGGCACCATCTAGTC
** *
363617 CTCAAAGAGCAGAACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGTCCCTTCTAGTCCTCA
66 CTCAAAGAGCAGAACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTCCCTTCTAGTCCTCA
* * *
363682 AAGAGCAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCATCAAAGA
131 AAGAGCAAGACACCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTCACAGTCATCAAAGA
363747 GCAAGACACTCTTTCCTTTCGCCCTTT
195 GCAAGACACTCTTTCCTTTCGCCCTTT
* * * * * *
363774 AGTCCTCAAGGAGCAGGATGCCTTTTCCT-TTCGAAGCCCACACAAGTCGGTGGCACCTTTCTAG
1 AGTCCTCAAAGAGCAGGACGCATTTTCCTCCT-AAAGCCCACACAAGTCGGTGGCACC-ATCTAG
* * * *
363838 TCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAGCCCACACAAGTTGGTGG-CACCTTTTAGTCC
64 TCCTCAAAGAGCAGAACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTC-CCTTCTAGTCC
** * * * *
363902 TCAGGGAGCAGGGCACCTTCT-TTTTCAAAGCCCACACAAGTTGGTGGCACCTCATAGTCCTCAA
128 TCAAAGAGCAAGACACCTTCTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTCACAGTCATCAA
363966 AGAG
192 AGAG
363970 TAGGACACAC
Statistics
Matches: 169, Mismatches: 23, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
221 5 0.03
222 88 0.52
223 76 0.45
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (221 bp):
AGTCCTCAAAGAGCAGGACGCATTTTCCTCCTAAAGCCCACACAAGTCGGTGGCACCATCTAGTC
CTCAAAGAGCAGAACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTCCCTTCTAGTCCTCA
AAGAGCAAGACACCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTCACAGTCATCAAAGAG
CAAGACACTCTTTCCTTTCGCCCTTT
Found at i:364104 original size:45 final size:43
Alignment explanation
Indices: 363958--364108 Score: 139
Period size: 46 Copynumber: 3.4 Consensus size: 43
363948 GCACCTCATA
*
363958 GTCCTCAAAGAGTAGGACACACCTT-ATT--TTCCTTTTCTCTTTT
1 GTCCTCAAAGAGTAGGA-ACA-CTTCATTCCTT-CTTTTCCCTTTT
* * *
364001 GTCCTCAAAGAGCAAG-ACACGTTCCATTTCCTTCTTTTGTCCTTTT
1 GTCCTCAAAGAGTAGGAACAC-TT-CA-TTCCTTCTTTT-CCCTTTT
* *
364047 TTCCCCAAAGAGTAGGAAGCACTTCATTCCCTTCTTTTCCCTTTT
1 GTCCTCAAAGAGTAGGAA-CACTTCATT-CCTTCTTTTCCCTTTT
364092 GTCCTCAAAGAGTAGGA
1 GTCCTCAAAGAGTAGGA
364109 CGCATTTTGT
Statistics
Matches: 87, Mismatches: 11, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
40 1 0.01
41 5 0.06
43 15 0.17
44 2 0.02
45 28 0.32
46 30 0.34
47 3 0.03
48 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (43 bp):
GTCCTCAAAGAGTAGGAACACTTCATTCCTTCTTTTCCCTTTT
Found at i:364130 original size:45 final size:45
Alignment explanation
Indices: 363958--364153 Score: 156
Period size: 43 Copynumber: 4.4 Consensus size: 45
363948 GCACCTCATA
* * *
363958 GTCCTCAAAGAGTAGGACACACCTT-ATTT--TCCTTTTCTCTTTT
1 GTCCTCAAAGAGTAGGACGCA-CTTCATTTCCTTCTTTTCCCTTTT
* * *
364001 GTCCTCAAAGAGCAAGA--CACGTTCCATTTCCTTCTTTTGTCCTTTT
1 GTCCTCAAAGAGTAGGACGCAC-TT-CATTTCCTTCTTTT-CCCTTTT
* * * *
364047 TTCCCCAAAGAGTAGGAAGCACTTCATTCCCTTCTTTTCCCTTTT
1 GTCCTCAAAGAGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTT
* **
364092 GTCCTCAAAGAGTAGGACGCATTTTGTTTTCCTT-TTTT-CC-TTT
1 GTCCTCAAAGAGTAGGACGCA-CTTCATTTCCTTCTTTTCCCTTTT
* *
364135 GTCCTCAAAAAGCAGGACG
1 GTCCTCAAAGAGTAGGACG
364154 TACTCTTTTT
Statistics
Matches: 124, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 4 0.03
43 39 0.31
44 2 0.02
45 34 0.27
46 39 0.31
47 2 0.02
48 3 0.02
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (45 bp):
GTCCTCAAAGAGTAGGACGCACTTCATTTCCTTCTTTTCCCTTTT
Found at i:364171 original size:78 final size:80
Alignment explanation
Indices: 364089--364276 Score: 199
Period size: 78 Copynumber: 2.3 Consensus size: 80
364079 TCTTTTCCCT
* * ** *
364089 TTTGTCCTCAAAGAGTAGGACGCATTTTGTTTTCCTTTTTTCCTT-T-GTCCTCAAAAAGCAGGA
1 TTTGTCCTCAAAGAGCAGGACAC-TTTCCTTTT-CTTTCTTCCTTCTAGTCCTCAAAAAGCAGGA
*
364152 CG-TACTCT-TTTTCA-C
64 CGCT-CTCTCATTTCACC
* *
364167 TTTGTCCTC-AAGAAGCAAGACACTTTCCTTTTCTTTCTTCCTTCTAGTCCTCAAAGAGCAGGAC
1 TTTGTCCTCAAAG-AGCAGGACACTTTCCTTTTCTTTCTTCCTTCTAGTCCTCAAAAAGCAGGAC
364231 GCTCTCTCATTTCACCC
65 GCTCTCTCATTTCA-CC
364248 TTTAGTCCTCAAAGAGCAGGACACCTTTC
1 TTT-GTCCTCAAAGAGCAGGACA-CTTTC
364277 AAAGCCCACA
Statistics
Matches: 91, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
76 10 0.11
77 11 0.12
78 38 0.42
79 6 0.07
81 4 0.04
82 14 0.15
83 8 0.09
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (80 bp):
TTTGTCCTCAAAGAGCAGGACACTTTCCTTTTCTTTCTTCCTTCTAGTCCTCAAAAAGCAGGACG
CTCTCTCATTTCACC
Found at i:364864 original size:20 final size:20
Alignment explanation
Indices: 364824--364878 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
364814 TTTACCTAGA
*
364824 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCTGCAT
364844 TGTATCGATACATTGCT-CAT
1 TGTATCGATACATT-CTGCAT
* *
364864 TATATCGATATATTC
1 TGTATCGATACATTC
364879 AAGCATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTCTGCAT
Found at i:365037 original size:11 final size:12
Alignment explanation
Indices: 365010--365035 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
365000 CGGAATGGAA
365010 TTTAAACATGTT
1 TTTAAACATGTT
365022 TTTAAACATGTT
1 TTTAAACATGTT
365034 TT
1 TT
365036 AAGATCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (12 bp):
TTTAAACATGTT
Found at i:367167 original size:51 final size:52
Alignment explanation
Indices: 367087--367306 Score: 238
Period size: 51 Copynumber: 4.3 Consensus size: 52
367077 ATTTTTCATC
* **
367087 TCGGGGATACTCCAA-TCC--TGGTTTCATTTCCAAAACATCAATTTCT-CTTAA
1 TCGGGGATACTCCAACTCCAAT-G-TT-ATTTCCAAAACACCAATTTCTCCACAA
* * *
367138 TCGGGGATACTCCAACTCCAATGTTATTTCTAAAACACCCATTT-TCCATAA
1 TCGGGGATACTCCAACTCCAATGTTATTTCCAAAACACCAATTTCTCCACAA
*
367189 TCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCAA-TTCTCCACAA
1 TCGGGGATACTCCAACTCCAATGTTATTTCCAAAACACCAATTTCTCCACAA
* * * * * * *
367240 TCGGGGATATTCTAACTCCGATTTTATTTCTAAAACACTAATTT-TTCACAA
1 TCGGGGATACTCCAACTCCAATGTTATTTCCAAAACACCAATTTCTCCACAA
367291 TCGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
367307 CCCGTTATTT
Statistics
Matches: 147, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
50 3 0.02
51 135 0.92
52 7 0.05
53 1 0.01
54 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
TCGGGGATACTCCAACTCCAATGTTATTTCCAAAACACCAATTTCTCCACAA
Found at i:367202 original size:102 final size:102
Alignment explanation
Indices: 367087--367306 Score: 282
Period size: 102 Copynumber: 2.2 Consensus size: 102
367077 ATTTTTCATC
** * **
367087 TCGGGGATACTCCAA-TCCTGGTTTCATTTCCAAAACATCAATT-TCTCTTAATCGGGGATACTC
1 TCGGGGATACTCCAACTCC-AATTTCATTTCCAAAACACCAATTCTC-CACAATCGGGGATACTC
* *
367150 CAACTCCAATGTTATTTCTAAAACACCCATTTTCCATAA
64 CAACTCCAATGTTATTTCTAAAACACCAATTTTCCACAA
* * *
367189 TCGGGGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTCTCCACAATCGGGGATATTCTA
1 TCGGGGATACTCCAACTCCAATTTCATTTCCAAAACACCAATTCTCCACAATCGGGGATACTCCA
* * * *
367254 ACTCCGATTTTATTTCTAAAACACTAATTTTTCACAA
66 ACTCCAATGTTATTTCTAAAACACCAATTTTCCACAA
367291 TCGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
367307 CCCGTTATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
102 97 0.95
103 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (102 bp):
TCGGGGATACTCCAACTCCAATTTCATTTCCAAAACACCAATTCTCCACAATCGGGGATACTCCA
ACTCCAATGTTATTTCTAAAACACCAATTTTCCACAA
Found at i:367326 original size:28 final size:27
Alignment explanation
Indices: 367290--367365 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
367280 ATTTTTCACA
367290 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
* *
367317 CATCGGGGATACTCCAA-CTCATTATTT
1 -ATCGGGGATACTCCAACCCCGTTATTT
367344 -TCGAAGGGATACTCCAACCCCG
1 ATCG--GGGATACTCCAACCCCG
367366 GCTTTATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.07
27 20 0.49
28 18 0.44
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTT
Found at i:367416 original size:51 final size:51
Alignment explanation
Indices: 367348--367466 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
367338 TTATTTTCGA
* *
367348 AGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATC
1 AGGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATC
* * *
367399 AGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATT
1 AGGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATC
*
367450 GGGGATAC-TCTAACCCC
1 AGGGATACTTC-AACCCC
367467 ATTATTTTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 2 0.03
51 59 0.97
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
AGGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACAATC
Found at i:367652 original size:130 final size:128
Alignment explanation
Indices: 367318--367653 Score: 354
Period size: 130 Copynumber: 2.6 Consensus size: 128
367308 CCGTTATTTC
* * *
367318 ATCGGGGATACTCCAACTCATTATTTTCGAAGGGATACTCCAACCCCGGCTTTATTTCCAAAATA
1 ATCGGGGATACTCCAACCCATTATTTTCGAGGGGATACTCCAACCCC-GTTTTATTTCCAAAATA
* * *
367383 TTGATTTCTCACAATCAGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATA
65 TTAATTTCTCACAATCAGGGACACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACA
* * * ** ***
367447 ATTGGGGATACTCTAACCCCATTATTTTC-ACGGAGATACTCCAATCCCAATTTTATTTTTGAAA
1 ATCGGGGATACTCCAA-CCCATTATTTTCGA-GGGGATACTCCAA-CCCCGTTTTATTTCCAAAA
* * * * ** *
367511 CATCTATTTTCT-ATAATCGGGGACACTTCAACCCTTGCCTTATTTCT-AAATCATTGATTTTTC
63 TAT-TAATTTCTCACAATCAGGGACACTTCAACCCCGGCCTTATTTCTAAAAT-ATTGATTTCTC
367574 ACA
126 ACA
* * *
367577 ATCGGGGATACTCCAGTCCCGTTATTTTCGAGGGGATACTCCAACCCCGTTATTATCTCCAAAAT
1 ATCGGGGATACTCCA-ACCCATTATTTTCGAGGGGATACTCCAACCCCGTT-TTATTTCCAAAAT
367642 ATTAAATTTCTC
64 ATT-AATTTCTC
367654 GTCGGGAGAT
Statistics
Matches: 163, Mismatches: 34, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
129 25 0.15
130 128 0.79
131 10 0.06
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (128 bp):
ATCGGGGATACTCCAACCCATTATTTTCGAGGGGATACTCCAACCCCGTTTTATTTCCAAAATAT
TAATTTCTCACAATCAGGGACACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACA
Found at i:370200 original size:17 final size:17
Alignment explanation
Indices: 370178--370211 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
370168 AAATTTTCCA
* *
370178 AAATAGGAATTTAAATT
1 AAATAGAAATTGAAATT
370195 AAATAGAAATTGAAATT
1 AAATAGAAATTGAAATT
370212 TGATTAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
AAATAGAAATTGAAATT
Found at i:373151 original size:19 final size:19
Alignment explanation
Indices: 373120--373165 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
373110 TTAGCTTATT
*
373120 TTTTCTTT-TTTTC-TCTC
1 TTTTCTTTCGTTTCTTCTC
373137 GTTTTCTTTCGTTTCTTCTC
1 -TTTTCTTTCGTTTCTTCTC
*
373157 TTTTTTTTC
1 TTTTCTTTC
373166 ACTTGCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 12 0.50
20 4 0.17
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTCTTTCGTTTCTTCTC
Found at i:381900 original size:52 final size:52
Alignment explanation
Indices: 381815--381939 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
381805 ATATGAAAAG
* * *
381815 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATAAATCTGGGCAAAT
* *
381867 TTTCCTGCATGTATCGATACATTTTATAATGTATCGATAAATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATAAATCTGGGCAAAT
381919 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
381940 AAGATCAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATAAATCTGGGCAAAT
Found at i:381950 original size:52 final size:52
Alignment explanation
Indices: 381815--381953 Score: 174
Period size: 52 Copynumber: 2.7 Consensus size: 52
381805 ATATGAAAAG
* * * *
381815 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATAAATCTGGGCAAAT
* ***
381867 TTTCCTGCATGTATCGATACATTTTATAATGTATCGATAAATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATAAATCTGGGCAAAT
381919 TTGCCTGCATGTATCGATACA-AAGATCAATGTATC
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATC
381954 AATACAATGT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 72 0.95
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATAAATCTGGGCAAAT
Found at i:382966 original size:55 final size:52
Alignment explanation
Indices: 382869--383561 Score: 404
Period size: 49 Copynumber: 14.5 Consensus size: 52
382859 AAGTGATAAA
* * * * * **
382869 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G--AAAT
* *
382924 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * * *
382976 GGTGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G----
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * *
383020 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * * * *
383068 GGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGAT--AAA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * * *
383117 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A--G----
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * * *
383161 G-TGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGA-AG-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * *
383209 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G----
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * *
383253 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AG-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * *
383301 GGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AG-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* *
383350 GGTGCCAATATGCTGATTCAAGGCCAGCTATATT-AGACTT-AA-A--G----
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGA-ACTTAAAGATGGAAAT
* * *
383394 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AG-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * * *
383442 GGTGCCAATACGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G----
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* * * *
383486 G-TGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGA-AG-AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
* *
383534 GGTGCCAATATGTTGATTCAAGGCCAGC
1 GATGCCAATATGCTGATTCAAGGCCAGC
383562 GATATTAGAC
Statistics
Matches: 554, Mismatches: 50, Indels: 74
0.82 0.07 0.11
Matches are distributed among these distances:
43 173 0.31
44 15 0.03
45 4 0.01
46 8 0.01
47 4 0.01
48 14 0.03
49 256 0.46
50 1 0.00
51 2 0.00
52 38 0.07
54 1 0.00
55 38 0.07
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAT
Found at i:383111 original size:92 final size:92
Alignment explanation
Indices: 382929--383576 Score: 807
Period size: 92 Copynumber: 6.9 Consensus size: 92
382919 AAAATGATGT
* * *
382929 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAATGGTGCCAATATGTTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AG-AA-GGTGCCAATATGCTGATT
382994 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTGC
**
383024 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
383089 GGCTAGCGATATTGGACTTAAAGATAAAGGTGC
66 GGCCAGCTATATTGGAC-T-----TAAAGGTGC
* * * *
383122 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
383181 GGCCAACTACATTGGACTTAAAGAAGAAGGTGC
66 GGCCAGCTATATTGGACTT-----A-AAGGTGC
* * *
383214 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
383273 GGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
66 GGCCAGCTATATTGGACTT-----A-AAGGTGC
*
383306 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
383371 GGCCAGCTATATTAGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
*
383398 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATACGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
383463 GGCCAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* *
383490 CAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
383555 GGCCAGCGATATTAGACTTAAA
66 GGCCAGCTATATTGGACTTAAA
383577 AGGGTTGCCA
Statistics
Matches: 506, Mismatches: 29, Indels: 39
0.88 0.05 0.07
Matches are distributed among these distances:
86 1 0.00
91 2 0.00
92 379 0.75
93 4 0.01
94 1 0.00
95 38 0.08
97 1 0.00
98 80 0.16
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGC
Found at i:383191 original size:141 final size:141
Alignment explanation
Indices: 382929--383576 Score: 794
Period size: 141 Copynumber: 4.6 Consensus size: 141
382919 AAAATGATGT
* * * *
382929 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAATGGTGCCAATATGTTGATT
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--AAA-GGTGCCAATATGCTGATT
*
382994 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
63 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
**
383059 AAAGGTGAAGGTGC
128 AAAGAAGAAGGTGC
* *
383073 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* * *
383138 GGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
383203 GAAGAAGGTGC
131 GAAGAAGGTGC
*
383214 CAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
383273 GGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGA
66 GGCCAGCTATATTGGACTT-----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGA
383338 CTTAAAGAAGAAGGTGC
125 CTTAAAGAAGAAGGTGC
* *
383355 CAATATGCTGATTCAAGGCCAGCTATATTAGAC-T-----TAAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* * *
383414 GGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATACGCTGATTCAAGGCCAGCTATATTGGA
66 GGCCAGCTATATTGGACTT-----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGA
383479 CTT-----A-AAGGTGC
125 CTTAAAGAAGAAGGTGC
* * * *
383490 CAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATGTTGATTCA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATA-AAGGTGCCAATATGCTGATTCA
* *
383554 AGGCCAGCGATATTAGACTTAAA
65 AGGCCAGCTATATTGGACTTAAA
383577 AGGGTTGCCA
Statistics
Matches: 462, Mismatches: 29, Indels: 35
0.88 0.06 0.07
Matches are distributed among these distances:
135 79 0.17
136 3 0.01
140 3 0.01
141 338 0.73
142 3 0.01
144 36 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (141 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
GAAGAAGGTGC
Found at i:383339 original size:233 final size:233
Alignment explanation
Indices: 382929--383576 Score: 1118
Period size: 233 Copynumber: 2.8 Consensus size: 233
382919 AAAATGATGT
* * *
382929 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAATGGTGCCAATATGTTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AG-AA-GGTGCCAATATGCTGATT
382994 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
63 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
** *
383059 AAAGGTGAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATA-AAGGTGCC
128 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-AGAAGGTGCC
*
383123 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGC
192 AATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGC
*
383165 CAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
383230 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
383295 GAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATA
131 GAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATA
*
383360 TGCTGATTCAAGGCCAGCTATATTAGACTTAAAGGTGC
196 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGC
*
383398 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATACGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
383463 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* *
383528 GAAGAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTTAAA
131 GAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
383577 AGGGTTGCCA
Statistics
Matches: 393, Mismatches: 18, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
232 1 0.00
233 351 0.89
234 2 0.01
235 1 0.00
236 38 0.10
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (233 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
GAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATA
TGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGC
Found at i:383702 original size:97 final size:96
Alignment explanation
Indices: 383574--383774 Score: 316
Period size: 97 Copynumber: 2.1 Consensus size: 96
383564 TATTAGACTT
*
383574 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG-GGGATTGCCACCGACTTGTGTGGGCTTT-
1 AAAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGG-TTGCCACCGACTTGTGGGGGCTTTG
*
383637 GAGAAGGGTTGCCACGAACTTGTGTGGGCTTTAG
64 GAG-AGGGTTGCCACCAACTTGTGTGGGCTTTAG
383671 AAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGGGGGCTTTGG
1 AA-AAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGGGGGCTTTGG
* *
383736 AGGGGGTTGCCACCAACTTGTGTGGGCTTTGG
65 AGAGGGTTGCCACCAACTTGTGTGGGCTTTAG
383768 AAAAGGT
1 AAAAGGT
383775 GAAAGATGCC
Statistics
Matches: 97, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
96 5 0.05
97 84 0.87
98 8 0.08
ACGTcount: A:0.18, C:0.17, G:0.37, T:0.27
Consensus pattern (96 bp):
AAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGGGGGCTTTGGA
GAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:383766 original size:32 final size:32
Alignment explanation
Indices: 383577--383768 Score: 264
Period size: 32 Copynumber: 6.0 Consensus size: 32
383567 TAGACTTAAA
*
383577 AGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
1 AGGGTTGCCACCGACTTGTGTGGGCTTTGGAG
383609 -GGGATTGCCACCGACTTGTGTGGGCTTT-GAG
1 AGGG-TTGCCACCGACTTGTGTGGGCTTTGGAG
*
383640 AAGGGTTGCCA-CGAACTTGTGTGGGCTTTAGAAG
1 -AGGGTTGCCACCG-ACTTGTGTGGGCTTT-GGAG
* *
383674 AAGGTTGCCACCGACTTGTGTGGGCTTTAGAG
1 AGGGTTGCCACCGACTTGTGTGGGCTTTGGAG
*
383706 AGGGTTGCCACCGACTTGTGGGGGCTTTGGAG
1 AGGGTTGCCACCGACTTGTGTGGGCTTTGGAG
* *
383738 GGGGTTGCCACCAACTTGTGTGGGCTTTGGA
1 AGGGTTGCCACCGACTTGTGTGGGCTTTGGA
383769 AAAGGTGAAA
Statistics
Matches: 143, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
31 8 0.06
32 104 0.73
33 27 0.19
34 4 0.03
ACGTcount: A:0.16, C:0.18, G:0.38, T:0.28
Consensus pattern (32 bp):
AGGGTTGCCACCGACTTGTGTGGGCTTTGGAG
Found at i:383820 original size:33 final size:31
Alignment explanation
Indices: 383781--384606 Score: 153
Period size: 34 Copynumber: 24.6 Consensus size: 31
383771 AGGTGAAAGA
* *
383781 TGCCATGAAGTTGTGGACTTAAAAAAAAGATGG
1 TGCCACGAAGTTGTGGACTT--AAAAAAGAAGG
* * **
383814 TGCCATGAAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGAAGTTGTGGACTTAAAAAAGAAGG
* **
383845 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
1 TGCCACGAAGTTGTGGACTTAAAAAAGAAGG
* * *
383876 TGCCACGGACTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGAAGTTGTGGACTTAAAA--AAGAAGG
* * *
383909 TGCCAC-AGAGTTGTGGGCTTTAAAAGGGAAAAAAAG
1 TGCCACGA-AGTTGTGGAC-TT-AAA---AAAGAAGG
* * *
383945 TGCCACGGAGTTGTGGGCTTTTGAAAAAAAAAGG
1 TGCCACGAAGTTGTGGAC--TT-AAAAAAGAAGG
* * *
383979 TGCCACGGACTCGTGGACTTAGAAGGAAA-AAGAG
1 TGCCACGAAGTTGTGGACTTA-AA--AAAGAAG-G
* * **
384013 TGCCACGGAGTTGTGGGCTTAAAAGGGTGAAAGAG
1 TGCCACGAAGTTGTGGACTTAAAA--AAG-AAG-G
* *
384048 TGCCACGGAGTTGTGGGCTTTGAAAAGAA-AAGGAG
1 TGCCACGAAGTTGTGGAC-TT-AAAA-AAGAA-G-G
** * *
384083 TGCCACAGGTGTTTTGGGCTTTGAAAAGAA-AATGAG
1 TGCCAC-GAAGTTGTGGAC-TT-AAAA-AAGAA-G-G
* * **
384119 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGAAGTTGTGGACTTAAAAAAGAAGG
* *
384150 TGCCACGGAGTTGTGGACTTAGAAGGAAA-TAGAG
1 TGCCACGAAGTTGTGGACTTA-AA--AAAGAAG-G
*
384184 TGCCAC-AGAGTTGTGGGCTTAAAAGGGTAA-AAGAG
1 TGCCACGA-AGTTGTGGACTTAAAA----AAGAAG-G
* * * *
384219 TGCCACGGAGTTTTGGGCTTTTGAAAAAAAAAAGG
1 TGCCACGAAGTTGTGGAC--TT--AAAAAAGAAGG
* *
384254 TGCCACGGACTTGTGGACTTAGAAGGAAA-AAGAG
1 TGCCACGAAGTTGTGGACTTA-AA--AAAGAAG-G
* * * * **
384288 TACCATGGAGTTGTGGGCTTAAAAGGTTGAAAGAG
1 TGCCACGAAGTTGTGGACTTAAAA--AAG-AAG-G
* *
384323 TGCCAC-AGAGTTGTGGGCTTTTGAAAAAAAAAGG
1 TGCCACGA-AGTTGTGGAC--TT-AAAAAAGAAGG
* *
384357 TGCCAC-AGACTCGTGGACTTAGAAGGAAA-AAGAG
1 TGCCACGA-AGTTGTGGACTTA-AA--AAAGAAG-G
* * **
384391 TGCCAC-AGAGTTATGGGCTTAAAAGGGTGAAAGAG
1 TGCCACGA-AGTTGTGGACTTAAAA--AAG-AAG-G
* *
384426 TGCCACGGAGTTGTGGGCTTTGAAAAGAA-AAGGAG
1 TGCCACGAAGTTGTGGAC-TT-AAAA-AAGAA-G-G
* **
384461 TGCCACGGAGTTGT-GAGCTTTGAAAAGAAGG
1 TGCCACGAAGTTGTGGA-CTTAAAAAAGAAGG
* * *
384492 TGCCCCGGAGTTGTGGACTTAGAAGAAAAAAGAG
1 TGCCACGAAGTTGTGGACTTA-AA-AAAGAAG-G
*
384526 TGCCAC-AGAGTTGTGGGCTT--AAAAG--GG
1 TGCCACGA-AGTTGTGGACTTAAAAAAGAAGG
*
384553 TGCCACGGAGTTGTGGACTTAGAAGGAAA-AAGAG
1 TGCCACGAAGTTGTGGACTTA-AA--AAAGAAG-G
*
384587 TGCCACGGAGTTGTGGACTT
1 TGCCACGAAGTTGTGGACTT
384607 TGAGACGAAA
Statistics
Matches: 629, Mismatches: 86, Indels: 155
0.72 0.10 0.18
Matches are distributed among these distances:
27 18 0.03
28 1 0.00
30 4 0.01
31 102 0.16
32 23 0.04
33 75 0.12
34 173 0.28
35 144 0.23
36 62 0.10
37 18 0.03
38 5 0.01
39 4 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (31 bp):
TGCCACGAAGTTGTGGACTTAAAAAAGAAGG
Found at i:383847 original size:31 final size:31
Alignment explanation
Indices: 383781--383895 Score: 131
Period size: 31 Copynumber: 3.6 Consensus size: 31
383771 AGGTGAAAGA
** *
383781 TGCCATGAAGTTGTGGACTTAAAAAAAAGATGG
1 TGCCATGAAGTTGTGGACTT--TGAAAAGAAGG
*
383814 TGCCATGAAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCATGAAGTTGTGGACTTTGAAAAGAAGG
* *
383845 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
1 TGCCATGAAGTTGTGGACTTTGAAAAGAAGG
* * *
383876 TGCCACGGACTTGTGGACTT
1 TGCCATGAAGTTGTGGACTT
383896 AAAAGGAACA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 55 0.74
33 19 0.26
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (31 bp):
TGCCATGAAGTTGTGGACTTTGAAAAGAAGG
Found at i:383982 original size:34 final size:34
Alignment explanation
Indices: 383801--384609 Score: 543
Period size: 35 Copynumber: 24.0 Consensus size: 34
383791 TTGTGGACTT
* *
383801 AAAAAAAAGATGGTGCCATGAAGTTGTGGGCTTTG-
1 AAAAAAAAGA--GTGCCACGGAGTTGTGGGCTTTGA
* *
383836 -AAAAGAAG-GTGCCACGGAGTTGTGGACTTTG-
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* * *
383867 -AAAAGAAG-GTGCCACGGACTTGTGGAC-TT-A
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* *
383897 AAAGGAACAAG-GTGCCACAGAGTTGTGGGCTTT-A
1 AAA--AAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
*
383931 AAAGGGAAAAAAAGTGCCACGGAGTTGTGGGCTTTTGA
1 AAA---AAAAAGAGTGCCACGGAGTTGTGGGC-TTTGA
* * * *
383969 AAAAAAAAG-GTGCCACGGACTCGTGGACTTAGA
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
**
384002 AGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-A
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
**
384034 AAAGGGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGA
1 AAA---AAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* * *
384071 AAAGAAAAGGAGTGCCACAGGTGTTTTGGGCTTTGA
1 AAA-AAAAAGAGTGCCAC-GGAGTTGTGGGCTTTGA
*
384107 AAAGAAAATGAGTGCCACGGAGTTGTGGGCTTTG-
1 AAA-AAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* * *
384141 -AAAAGAAG-GTGCCACGGAGTTGTGGACTTAGA
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
** * *
384173 AGGAAATAGAGTGCCACAGAGTTGTGGGC-TT-A
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* *
384205 AAAGGGTAAAAGAGTGCCACGGAGTTTTGGGCTTTTGA
1 AAA---AAAAAGAGTGCCACGGAGTTGTGGGC-TTTGA
* * *
384243 AAAAAAAA-AGGTGCCACGGACTTGTGGACTTAGA
1 AAAAAAAAGA-GTGCCACGGAGTTGTGGGCTTTGA
** * *
384277 AGGAAAAAGAGTACCATGGAGTTGTGGGC-TT-A
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
** *
384309 AAAGGTTGAAAGAGTGCCACAGAGTTGTGGGCTTTTGA
1 AAA---AAAAAGAGTGCCACGGAGTTGTGGGC-TTTGA
* * * * *
384347 AAAAAAAAG-GTGCCACAGACTCGTGGACTTAGA
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
** * *
384380 AGGAAAAAGAGTGCCACAGAGTTATGGGC-TT-A
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
**
384412 AAAGGGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGA
1 AAA---AAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* *
384449 AAAGAAAAGGAGTGCCACGGAGTTGTGAGCTTTG-
1 AAA-AAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* * * *
384483 -AAAAGAAG-GTGCCCCGGAGTTGTGGACTTAGA
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* *
384515 AGAAAAAAGAGTGCCACAGAGTTGTGGGC-TT--
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* * *
384546 ----AAAAGGGTGCCACGGAGTTGTGGACTTAGA
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
** *
384576 AGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGA
1 AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
384610 GACGAAATGC
Statistics
Matches: 613, Mismatches: 112, Indels: 99
0.74 0.14 0.12
Matches are distributed among these distances:
27 22 0.04
28 1 0.00
30 2 0.00
31 88 0.14
32 16 0.03
33 62 0.10
34 163 0.27
35 178 0.29
36 54 0.09
37 15 0.02
38 12 0.02
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (34 bp):
AAAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
Found at i:384035 original size:103 final size:102
Alignment explanation
Indices: 383835--384602 Score: 677
Period size: 103 Copynumber: 7.6 Consensus size: 102
383825 TGTGGGCTTT
* * *
383835 GAAAAGAAGGTGCCACGGAGTTGTGGACTTTG--AAAAGAAG-GTGCCACGGACTTGTGGACTTA
1 GAAAA-AAGGTGCCACGGAGTTGTGGACTTTGAAAAAAAAAGAGTGCCACGGAGTTGTGGGCTTA
* *
383897 AAAGGAACAAG-GTGCCACAGAGTTGTGGGCTTTAAAA
65 AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
* * * * *
383934 GGGAAAAAAAGTGCCACGGAGTTGTGGGCTTTTGAAAAAAAAAG-GTGCCACGGACTCGTGGACT
1 --GAAAAAAGGTGCCACGGAGTTGTGGAC-TTTGAAAAAAAAAGAGTGCCACGGAGTTGTGGGCT
*
383998 TAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAA
63 TAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
*** * * * *
384037 GGGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGAGTGCCACAGGTGTTTTGGGC
1 -GAAAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAA-AAAAAGAGTGCCAC-GGAGTTGTGGGC
*
384102 TTTGAAAA-GAAAATGAGTGCCACGGAGTTGTGGGCTTT----
62 -TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
* ** * *
384140 GAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAATAGAGTGCCACAGAGTTGTGGGCTTA
1 GAAAA-AAGGTGCCACGGAGTTGTGGACTTTGAAAAAAAAAGAGTGCCACGGAGTTGTGGGCTTA
* *
384205 AAAGGGTAAAAGAGTGCCACGGAGTTTTGGGCTTTTGAAAA
65 AAA-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTT-AAAA
* * ** * *
384246 -AAAAAAGGTGCCACGGACTTGTGGACTTAGAAGGAAAAAGAGTACCATGGAGTTGTGGGCTTAA
1 GAAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
** * *
384310 AAGGTTGAAAGAGTGCCACAGAGTTGTGGGCTTTTGAAA
66 AAGG-AAAAAGAGTGCCACGGAGTTGTGGGC-TTTAAAA
* * * * ** * *
384349 -AAAAAAGGTGCCACAGACTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTAA
1 GAAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
**
384413 AAGGGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
66 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA
* * * *
384452 G-AAAAGGAGTGCCACGGAGTTGT-GAGCTTTG--AAAAGAAG-GTGCCCCGGAGTTGTGGACTT
1 GAAAAAAG-GTGCCACGGAGTTGTGGA-CTTTGAAAAAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
384512 AGAAGAAAAAAGAGTGCCACAGAGTTGTGGGC-TTAAAA
64 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
* **
384550 G------GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGG
1 GAAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAAAAAAGAGTGCCACGGAGTTGTGG
384603 ACTTTGAGAC
Statistics
Matches: 564, Mismatches: 73, Indels: 66
0.80 0.10 0.09
Matches are distributed among these distances:
92 19 0.03
93 3 0.01
94 5 0.01
95 16 0.03
98 9 0.02
99 4 0.01
100 77 0.14
101 44 0.08
102 46 0.08
103 170 0.30
104 127 0.23
105 11 0.02
106 28 0.05
107 5 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (102 bp):
GAAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
Found at i:384336 original size:275 final size:269
Alignment explanation
Indices: 383827--384364 Score: 866
Period size: 275 Copynumber: 2.0 Consensus size: 269
383817 CATGAAGTTG
383827 TGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGACTTGTGG
1 TGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGACTTGTGG
383892 ACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACGGAGTT
66 ACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACGGAGTT
*
383957 GTGGGCTTTTGAAAAAAAAAGGTGCCACGGACTCGTGGACTTAGAAGGAAAAAGAGTGCCACGGA
131 GTGGGCTTTTGAAAAAAAAAGGTGCCACGGACTCGTGGACTTAGAAGGAAAAAGAGTACCACGGA
* *
384022 GTTGTGGGCTTAAAAGGGTGAAAGAGTGCCACGGAGTTGTGGGC-TTTGAAAAGAAAAGGAGTGC
196 GTTGTGGGCTTAAAAGGGTGAAAGAGTGCCACAGAGTTGTGGGCTTTTGAAAA-AAAAAG-GTGC
384086 CACAGGTGTTT
259 CACAGGTGTTT
* *
384097 TGGGCTTTGAAAAGAAAATGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTT
1 TGGGCTTTGAAAAG--AA-G-GTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGACTT
* * *
384162 GTGGACTTAGAAGGAA-ATAGAGTGCCACAGAGTTGTGGGC-TTAAAAGGGTAAAAGAGTGCCAC
62 GTGGACTTAAAAGGAACA-AG-GTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCAC
* *
384225 GGAGTTTTGGGCTTTTGAAAAAAAAAAGGTGCCACGGACTTGTGGACTTAGAAGGAAAAAGAGTA
125 GGAGTTGTGGGCTTTTG-AAAAAAAAAGGTGCCACGGACTCGTGGACTTAGAAGGAAAAAGAGTA
* *
384290 CCATGGAGTTGTGGGCTTAAAAGGTTGAAAGAGTGCCACAGAGTTGTGGGCTTTTGAAAAAAAAA
189 CCACGGAGTTGTGGGCTTAAAAGGGTGAAAGAGTGCCACAGAGTTGTGGGCTTTTGAAAAAAAAA
384355 GGTGCCACAG
254 GGTGCCACAG
384365 ACTCGTGGAC
Statistics
Matches: 248, Mismatches: 12, Indels: 12
0.91 0.04 0.04
Matches are distributed among these distances:
270 14 0.06
272 2 0.01
273 2 0.01
274 105 0.42
275 117 0.47
276 8 0.03
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (269 bp):
TGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGGACTTGTGG
ACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACGGAGTT
GTGGGCTTTTGAAAAAAAAAGGTGCCACGGACTCGTGGACTTAGAAGGAAAAAGAGTACCACGGA
GTTGTGGGCTTAAAAGGGTGAAAGAGTGCCACAGAGTTGTGGGCTTTTGAAAAAAAAAGGTGCCA
CAGGTGTTT
Found at i:384336 original size:378 final size:365
Alignment explanation
Indices: 383844--384607 Score: 1070
Period size: 378 Copynumber: 2.1 Consensus size: 365
383834 TGAAAAGAAG
* *
383844 GTGCCACGGAGTTGTGGAC-TTTGAAAAGAAGGTGCCACGGACTTGTGGACTTAAAAGGAACAAG
1 GTGCCACGGAGTTGTGGACTTTTGAAAAAAAGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAG
* *
383908 GTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACGGAGTTGTGGGCTTTTGAAAAA
66 GTACCACAGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACAGAGTTGTGGGCTTTTGAAAAA
* * *
383973 AAAAGGTGCCACGGACTCGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
131 AAAAGGTGCCACAGACTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTAAAAG
* * *
384038 GGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGAGTGCCACAGGTGTTTTGGGCT
196 GGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGAGTGCCAC-GGAGTTGTGAGCT
* * * *
384103 TTGAAAAGAAAATGAGTGCCACGGAGTTGTGGGCTTTG-A-AAAGAAG-GTGCCACGGAGTTGTG
260 TTGAAAAG--AA-G-GTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACAGAGTTGTG
* *
384165 GACTTAGAAGGAAATAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTAAAAGA
321 GACTT------AAA-AGAGTGCCACAGAGTTGTGGACTTAAAA-GGAAAAAGA
* * *
384218 GTGCCACGGAGTTTTGGGCTTTTGAAAAAAAAAAGGTGCCACGGACTTGTGGACTTAGAAGGAAA
1 GTGCCACGGAGTTGTGGACTTTTG---AAAAAAAGGTGCCACGGACTTGTGGACTTAAAAGGAAA
** *** *
384283 AAGAGTACCATGGAGTTGTGGGC-TTAAAAGGTTGAAAGAGTGCCACAGAGTTGTGGGCTTTTGA
63 AAG-GTACCACAGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACAGAGTTGTGGGCTTTTGA
384347 AAAAAAAAGGTGCCACAGACTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTA
127 AAAAAAAAGGTGCCACAGACTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTA
384412 AAAGGGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGAGTGCCACGGAGTTGTGA
192 AAAGGGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGAGTGCCACGGAGTTGTGA
*
384477 GCTTTGAAAAGAAGGTGCCCCGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACAGAGTTGTGG
257 GCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACAGAGTTGTGG
* * * *
384542 GCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
322 ACTTAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
384586 GTGCCACGGAGTTGTGGACTTT
1 GTGCCACGGAGTTGTGGACTTT
384608 GAGACGAAAT
Statistics
Matches: 350, Mismatches: 32, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
368 28 0.08
369 24 0.07
370 3 0.01
373 20 0.06
374 19 0.05
375 12 0.03
376 19 0.05
377 18 0.05
378 191 0.55
379 16 0.05
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (365 bp):
GTGCCACGGAGTTGTGGACTTTTGAAAAAAAGGTGCCACGGACTTGTGGACTTAAAAGGAAAAAG
GTACCACAGAGTTGTGGGCTTTAAAAGGGAAAAAAAGTGCCACAGAGTTGTGGGCTTTTGAAAAA
AAAAGGTGCCACAGACTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTAAAAG
GGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAGGAGTGCCACGGAGTTGTGAGCTT
TGAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACAGAGTTGTGGACTT
AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
Found at i:384567 original size:61 final size:63
Alignment explanation
Indices: 383944--384609 Score: 374
Period size: 69 Copynumber: 9.9 Consensus size: 63
383934 GGGAAAAAAA
* * * * * * *
383944 GTGCCACGGAGTTGTGGGCTTTTGAAAAAAAAAG-GTGCCACGGACTCGTGGACTTAGAAGGAAA
1 GTGCCACGGAGTTGTGGAC-TTAGAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTT----TG-AA
*
384008 AAGA
60 AAGG
* * ***
384012 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 GTGCCACGGAGTTGTGGACTTAGAA-GAAAAAAGAGTGCCACGGAGTTGTGGGCTTT-----GAA
384077 AAGG
60 AAGG
* * * *
384081 AGTGCCACAGGTGTTTTGGGCTTTGAA-AAGAAAATGAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 -GTGCCAC-GGAGTTGTGGACTTAGAAGAA-AAAA-GAGTGCCACGGAGTTGTGGGCTTTGAAAA
384145 GAAG
62 G--G
* * * *
384149 GTGCCACGGAGTTGTGGACTTAGAAGGAAATAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTAA
1 GTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTT-----TG-AA
*
384214 AAGA
60 AAGG
* * * * * * *
384218 GTGCCACGGAGTTTTGGGCTTTTGAA-AAAAAAAAGGTGCCACGGACTTGTGGACTTAGAAGGAA
1 GTGCCACGGAGTTGTGGAC-TTAGAAGAAAAAAGA-GTGCCACGGAGTTGTGGGCTT----TG-A
*
384282 AAAGA
59 AAAGG
* * * * *** *
384287 GTACCATGGAGTTGTGGGCTTAAAAGGTTGAAAGAGTGCCACAGAGTTGTGGGCTTTTGAAAAAA
1 GTGCCACGGAGTTGTGGACTTAGAA-GAAAAAAGAGTGCCACGGAGTTGTGGGC-TTTG----AA
*
384352 AAAG
60 AAGG
* * * * * *
384356 GTGCCACAGACTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTAAAAGGGTG-
1 GTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTT-------TGA
*
384420 AAAGA
59 AAAGG
* * *
384425 GTGCCACGGAGTTGTGGGCTTTGAA-AAGAAAAGGAGTGCCACGGAGTTGTGAGCTTTGAAAAGA
1 GTGCCACGGAGTTGTGGACTTAGAAGAA-AAAA-GAGTGCCACGGAGTTGTGGGCTTTGAAAAG-
384489 AG
63 -G
* *
384491 GTGCCCCGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACAGAGTTGTGGGC-TT-AAAAGG
1 GTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGG
* *
384552 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGA
1 GTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
384610 GACGAAATGC
Statistics
Matches: 469, Mismatches: 86, Indels: 91
0.73 0.13 0.14
Matches are distributed among these distances:
61 50 0.11
62 2 0.00
63 8 0.02
64 6 0.01
65 41 0.09
66 50 0.11
67 16 0.03
68 53 0.11
69 137 0.29
70 61 0.13
71 43 0.09
74 2 0.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (63 bp):
GTGCCACGGAGTTGTGGACTTAGAAGAAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGG
Found at i:384578 original size:27 final size:27
Alignment explanation
Indices: 384519--384578 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
384509 CTTAGAAGAA
* *
384519 AAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
*
384546 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
*
384573 AGAAGG
1 AAAAGG
384579 AAAAAGAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTGTGGACTT
Found at i:384677 original size:95 final size:96
Alignment explanation
Indices: 384546--384735 Score: 258
Period size: 95 Copynumber: 2.0 Consensus size: 96
384536 TTGTGGGCTT
* * *
384546 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTGAG
1 AAAAGGATGCCACGGAGTCGTGGACTTAGAAGGAAAAAGA-TGCCACGGAGTCGTGGACTTTGAG
*
384611 ACGA-AATGCCACTGAGTCGTGGACTTTAAAG
65 AAGAGAATGCCACTGAGTCGTGGACTTTAAAG
** * * * *
384642 AAAAGGATGCCACTTAGTCGTGGACTTTGAA-GAAAAGGATGCCACTGAGTCGTGGGCTTTGAGA
1 AAAAGGATGCCACGGAGTCGTGGACTTAGAAGGAAAAAGATGCCACGGAGTCGTGGACTTTGAGA
*
384706 AGAGATTGCCACTGAGTCGTGGACTTTAAA
66 AGAGAATGCCACTGAGTCGTGGACTTTAAA
384736 AAGGAACTTG
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
94 24 0.29
95 32 0.39
96 26 0.32
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.23
Consensus pattern (96 bp):
AAAAGGATGCCACGGAGTCGTGGACTTAGAAGGAAAAAGATGCCACGGAGTCGTGGACTTTGAGA
AGAGAATGCCACTGAGTCGTGGACTTTAAAG
Done.