Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008853.1 Hibiscus syriacus cultivar Beakdansim tig00112069_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 472107
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:172490 original size:108 final size:108
Alignment explanation
Indices: 172243--172697 Score: 682
Period size: 108 Copynumber: 4.2 Consensus size: 108
172233 GAGCAAGTGA
* * *
172243 CATGTGCTCATAGTAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGG
1 CATGTGCTCATAGTAGAAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGA
*
172308 TTTGGTATGAA-CCCAAAAACCAATCATTGGATTTGAAAGATC
66 TTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATG
* *
172350 CATGTGCTCATAGTAGAAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 CATGTGCTCATAGTAGAAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCT-G
172415 A-TTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATG
65 ATTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATG
172458 CATGTGCTCATAGTAGAAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGA
1 CATGTGCTCATAGTAGAAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGA
*
172523 TTTGGTATGAACCCCAAAAACCAATCATTGGATTTAAAAGATG
66 TTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATG
* * *
172566 AATTTGCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCT
1 CATGTGCTCATAGTAG----AA-GA--CCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCT
* *
172631 GATCTGATTTGGTATGAACTCC-AAAATCAATCATTGGATTTGAAAGATG
59 GATCTGATTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATG
* * *
172680 AATTTGCTCATGGTAGAA
1 CATGTGCTCATAGTAGAA
172698 ATGGATTTGA
Statistics
Matches: 325, Mismatches: 13, Indels: 17
0.92 0.04 0.05
Matches are distributed among these distances:
107 73 0.22
108 146 0.45
110 2 0.01
112 2 0.01
113 2 0.01
114 41 0.13
115 59 0.18
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (108 bp):
CATGTGCTCATAGTAGAAGACCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGA
TTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATG
Found at i:172703 original size:34 final size:34
Alignment explanation
Indices: 172665--172733 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
172655 AATCAATCAT
* *
172665 TGGATTTGAAAGATGAATTTGCTCATGGTAGAAA
1 TGGATTTGAAAGATGAATTTGCTCATAGTACAAA
172699 TGGATTTGAAAGATGAATTTGCTCATAGTACAAA
1 TGGATTTGAAAGATGAATTTGCTCATAGTACAAA
172733 T
1 T
172734 AAAGAGACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.33
Consensus pattern (34 bp):
TGGATTTGAAAGATGAATTTGCTCATAGTACAAA
Found at i:172966 original size:115 final size:112
Alignment explanation
Indices: 172707--172945 Score: 284
Period size: 112 Copynumber: 2.1 Consensus size: 112
172697 AATGGATTTG
* * * * *
172707 AAAGATGAATTTGCTCATAGTACAAATAAAGAGACCCAATAACATCTTGGAATGTTCTTTGAGTT
1 AAAGATGAATCTGCTCATCGTAGAAATAAGGAGGCCCAATAACATCTTGGAATGTTCTTTGAGTT
* * * * * *
172772 ATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTAGATTTG
66 ATCTGATCTGGTTCGATAGGAACCACAAAAACCAATCATTAGAATTA
* * * *
172819 AAAGATGAATTTTCTCATGGTAGAAATAAGGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 AAAGATGAATCTGCTCATCGTAGAAATAAGGAGGCCCAATAACATC-T-TGGAA-TGTTCTTTGA
* *
172884 GTTATCTGATCTGGTTCGATAGGAACCAC-AGAACCAATCATTGGAATTA
63 GTTATCTGATCTGGTTCGATAGGAACCACAAAAACCAATCATTAGAATTA
172933 AAAGATGAA-CTGC
1 AAAGATGAATCTGC
172946 ATGATCGTCT
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
112 40 0.37
113 3 0.03
114 30 0.28
115 35 0.32
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (112 bp):
AAAGATGAATCTGCTCATCGTAGAAATAAGGAGGCCCAATAACATCTTGGAATGTTCTTTGAGTT
ATCTGATCTGGTTCGATAGGAACCACAAAAACCAATCATTAGAATTA
Found at i:175954 original size:113 final size:113
Alignment explanation
Indices: 175722--176230 Score: 903
Period size: 113 Copynumber: 4.5 Consensus size: 113
175712 TAGCAAAGAT
175722 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAA-TCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
** *
175786 AGAAGGAAGAAGAAATTCATAATGAGAAATTTTTTTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
* *
175834 TCAAATCCATCATTTGATGGATCAGTTTTTCTAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
175899 AGAAGAAAGAAGAAATTCATAATGAGAAAAATTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
*
175947 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAATAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
176012 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
176060 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
176125 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTAC
66 AGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
*
176173 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACT
176231 TGTTCAACTT
Statistics
Matches: 380, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
112 54 0.14
113 326 0.86
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (113 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
Found at i:176257 original size:73 final size:73
Alignment explanation
Indices: 176135--176303 Score: 196
Period size: 73 Copynumber: 2.3 Consensus size: 73
176125 AGAAGGAAGA
* * * *
176135 AGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTACTCAAATCCATCATTTGATGGATCAGC
1 AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTCAAATCCATCACTCGATGGAACAGC
** *
176199 TTTTCCAG
66 AGTACCAG
* * * * *
176207 AGAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGAACAGC
1 AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTCAAATCCATCACTCGATGGAACAGC
176272 AGTACCAG
66 AGTACCAG
** *
176280 TTAGAGTTCATAATGAGAAGAACT
1 AGAAAGTTCATAATGAGAAGAACT
176304 CATCTAAAGA
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
72 5 0.06
73 76 0.94
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (73 bp):
AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACTCAAATCCATCACTCGATGGAACAGC
AGTACCAG
Found at i:176290 original size:186 final size:185
Alignment explanation
Indices: 176022--176356 Score: 490
Period size: 186 Copynumber: 1.8 Consensus size: 185
176012 AGAAGGAAGA
* * * * *
176022 AGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCT
1 AGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAACAGCA
* * * *
176087 TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
66 GTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAATTCATAATGAGA
*
176152 AGAATTTGTTCAACCTTTTACTCAAATCCATCATTTGATGGATCAGCTTTTCCAG
131 AGAACTTGTTCAACCTTTTACTCAAATCCATCATTTGATGGATCAGCTTTTCCAG
* * * *
176207 AGAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGAACAGC
1 AGAAA-TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAACAGC
** * *
176272 AGTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAGTTCATAATGAG
65 AGTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAATTCATAATGAG
*
176337 AAGAACTTGTTCAACTTTTT
130 AAGAACTTGTTCAACCTTTT
176357 GCTTGAATTC
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
185 5 0.04
186 125 0.96
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (185 bp):
AGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAACAGCA
GTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAATTCATAATGAGA
AGAACTTGTTCAACCTTTTACTCAAATCCATCATTTGATGGATCAGCTTTTCCAG
Found at i:176337 original size:113 final size:113
Alignment explanation
Indices: 176210--176568 Score: 488
Period size: 113 Copynumber: 3.2 Consensus size: 113
176200 TTTCCAGAGA
* * * * *
176210 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGAACAGCAGT
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTCGATGGATCAACATT
176275 ACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAG
66 ACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAG
* * *
176323 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCATCATT
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTCGATGGATCAACATT
* * * *
176388 ACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG
66 ACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAG
* * * *
176436 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATCAACATT
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTCGATGGATCAACATT
* * * * **
176501 GCCAGGTAGAGTTCATAATGAGCAGAACTCGTC-ACCTG-AAGAAGAAG
66 ACCAGTTAGAGTTCATAATGAGAAGAACTCATCTA-AAGAAAGAAGAAG
*
176548 AAGTTCACAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
176569 CATCTGAAGA
Statistics
Matches: 215, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
112 27 0.13
113 188 0.87
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTCGATGGATCAACATT
ACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAG
Found at i:176339 original size:299 final size:299
Alignment explanation
Indices: 175909--176529 Score: 814
Period size: 299 Copynumber: 2.1 Consensus size: 299
175899 AGAAGAAAGA
* * * * * *
175909 AGAAA-TTCATAATGAGAAAAATTTGTTTAACCTTTTGCTCAAATCCATCATTTGATGGATCAGC
1 AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAACAGC
** * * * *
175973 TTTTCCAGAAAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
66 AGTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAATTCATAATGAG
* ** * *
176038 AAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTC
131 AAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACCAGAAAAAGTTC
*
176103 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCT
196 ATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCT
* * *
176168 TTTACTCAAATCCATCATTTGATGGATCAGCTTTTCCAG
261 TTTACTCAAATCCATCATTTGATGGATCAACATTGCCAG
* * * *
176207 AGAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGAACAGC
1 AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAACAGC
** * *
176272 AGTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAGTTCATAATGAG
66 AGTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAATTCATAATGAG
* ** * * ****
176337 AAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCATCATTACCAGTTCGAGTTC
131 AAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACCAGAAAAAGTTC
*
176402 ATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCT
196 ATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCT
** * *
176467 TTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAG
261 TTTACTCAAATCCATCATTTGATGGATCAACATTGCCAG
* *
176506 -GTAGAGTTCATAATGAGCAGAACT
1 AG-AAAGTTCATAATGAGAAGAACT
176530 CGTCACCTGA
Statistics
Matches: 276, Mismatches: 45, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
298 6 0.02
299 270 0.98
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (299 bp):
AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAACAGC
AGTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAATTCATAATGAG
AAGAACTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCATTACCAGAAAAAGTTC
ATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCT
TTTACTCAAATCCATCATTTGATGGATCAACATTGCCAG
Found at i:176403 original size:186 final size:186
Alignment explanation
Indices: 176022--176416 Score: 486
Period size: 186 Copynumber: 2.1 Consensus size: 186
176012 AGAAGGAAGA
* * * *
176022 AGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGC
1 AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAACAGC
** * * *
176086 TTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
66 AGTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAATTCATAATGAG
* ** * *
176151 AAGAATTTGTTCAACCTTTTACTCAAATCCATCATTTGATGGATCAGCTTTTCCAG
131 AAGAACTTGTTCAACCTTTTACTCAAATCCATCATTCAATGGATCAGCATTACCAG
* * * *
176207 AGAAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTCGGTGGAACAGC
1 AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAACAGC
** * *
176272 AGTACCAGTTAGAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAGTTCATAATGAG
66 AGTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAATTCATAATGAG
* * ** * *
176337 AAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATCATCATTACCAG
131 AAGAACTTGTTCAACCTTTTACTCAAATCCATCATTCAATGGATCAGCATTACCAG
**** *
176393 TTCGAGTTCATAATAAGAAGAACT
1 AGAAAGTTCATAATGAGAAGAACT
176417 CATCTGAAGA
Statistics
Matches: 176, Mismatches: 33, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
185 5 0.03
186 171 0.97
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (186 bp):
AGAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGAACAGC
AGTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAATTCATAATGAG
AAGAACTTGTTCAACCTTTTACTCAAATCCATCATTCAATGGATCAGCATTACCAG
Found at i:176567 original size:39 final size:36
Alignment explanation
Indices: 176532--176600 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
176522 GCAGAACTCG
176532 TCACCTGAAGAAGAAGAAGTTCACAATGAGAAGAAC
1 TCACCTGAAGAAGAAGAAGTTCACAATGAGAAGAAC
*
176568 TCATCTGAAGAAGAAGAAGTTCACAATGA-AAGA
1 TCACCTGAAGAAGAAGAAGTTCACAATGAGAAGA
176601 GCTTGTTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.48, C:0.14, G:0.22, T:0.16
Consensus pattern (36 bp):
TCACCTGAAGAAGAAGAAGTTCACAATGAGAAGAAC
Found at i:176850 original size:8 final size:7
Alignment explanation
Indices: 176836--176880 Score: 51
Period size: 6 Copynumber: 6.7 Consensus size: 7
176826 TTTACCCATC
176836 TTATTTA
1 TTATTTA
176843 TATATTTA
1 T-TATTTA
176851 TTA-TTA
1 TTATTTA
*
176857 TTA-TCA
1 TTATTTA
176863 TTATTTA
1 TTATTTA
176870 TTA-TTA
1 TTATTTA
176876 TTATT
1 TTATT
176881 GTTATTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 17 0.52
7 9 0.27
8 7 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (7 bp):
TTATTTA
Found at i:176856 original size:3 final size:3
Alignment explanation
Indices: 176848--176896 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
176838 ATTTATATAT
* * *
176848 TTA TTA TTA TTA TCA TTA TTTA TTA TTA TTA TTG TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
176894 TTA
1 TTA
176897 AATATTACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:178528 original size:20 final size:19
Alignment explanation
Indices: 178503--178544 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
178493 CTATTTTATA
178503 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
178523 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
178542 AAT
1 AAT
178545 ATCGAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:178594 original size:120 final size:117
Alignment explanation
Indices: 178399--178631 Score: 299
Period size: 120 Copynumber: 2.0 Consensus size: 117
178389 TATTTTAATC
* * *
178399 TTGTTTTAATATTTATTTATTTTTAATATTAAGAAAAGGCAGTCTTAAAACAACTGGATGTCCAT
1 TTGTTTTAATATTTATTTATTTTTAATATGAAGAAAAGGCAGTCTTAAAACAACTAGAAGTCCAT
*
178464 TTTCTAATATTTTTAAATAAATAAATATCCTATTTTATAAAT-TATATATTAA
66 TTTCTAATATTTCTAAATAAATAAATATCCTA-TTTATAAATATATATATTAA
* * ** *
178516 TTGTTTTAATTATTTATTTATTTTTTAATATCGAGGAAAAGAGCTGTCTTAAGGCACCTAGAAGT
1 TTGTTTTAA-TATTTATTTA-TTTTTAATAT-GAAGAAAAG-GCAGTCTTAAAACAACTAGAAGT
* **
178581 -CATTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATA
62 CCATTTTCTAATATTTCTAAATAAATAAATATCCTATTTATAAATATATATA
178632 AACTAATATA
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
117 9 0.09
118 10 0.10
119 19 0.19
120 44 0.44
121 17 0.17
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (117 bp):
TTGTTTTAATATTTATTTATTTTTAATATGAAGAAAAGGCAGTCTTAAAACAACTAGAAGTCCAT
TTTCTAATATTTCTAAATAAATAAATATCCTATTTATAAATATATATATTAA
Found at i:179361 original size:22 final size:21
Alignment explanation
Indices: 179336--179376 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
179326 TATATTTTAA
179336 ATAT-TAT-AATTTAATTAAAT
1 ATATATATAAATTT-ATTAAAT
179356 ATATATATAAATTTATTAAAT
1 ATATATATAAATTTATTAAAT
179377 GACTTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATATATAAATTTATTAAAT
Found at i:181309 original size:22 final size:22
Alignment explanation
Indices: 181281--181338 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
181271 CAAACCATTA
181281 AGGGGGGAATCGGTACCCCCTT
1 AGGGGGGAATCGGTACCCCCTT
181303 AGGGGGGAATCGGTACCCCCTT
1 AGGGGGGAATCGGTACCCCCTT
181325 AGGGGGGAATCGGT
1 AGGGGGGAATCGGT
181339 TCCCTCTGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.41, T:0.17
Consensus pattern (22 bp):
AGGGGGGAATCGGTACCCCCTT
Found at i:181704 original size:25 final size:26
Alignment explanation
Indices: 181670--181733 Score: 105
Period size: 25 Copynumber: 2.5 Consensus size: 26
181660 CCCCTTACTC
*
181670 TAACACTTCTCCCCTTT-AAACACTT
1 TAACATTTCTCCCCTTTAAAACACTT
181695 TAACATTTCT-CCCTTTAAAACACTT
1 TAACATTTCTCCCCTTTAAAACACTT
181720 TAACATTTCTCCCC
1 TAACATTTCTCCCC
181734 CTTTTTGTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
24 6 0.17
25 27 0.75
26 3 0.08
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (26 bp):
TAACATTTCTCCCCTTTAAAACACTT
Found at i:189600 original size:23 final size:24
Alignment explanation
Indices: 189554--189600 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
189544 TATTTTTCTC
*
189554 TTAAAATTTATATAAATTCAACTT
1 TTAAAATTTATACAAATTCAACTT
*
189578 TTAAAATTT-TACAAATTCGACTT
1 TTAAAATTTATACAAATTCAACTT
189601 CCTAACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAAAATTTATACAAATTCAACTT
Found at i:191142 original size:24 final size:25
Alignment explanation
Indices: 191114--191161 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
191104 GTTAATTCTA
*
191114 ATATT-CACTTGTTATTGAAAAAAT
1 ATATTACACTTGCTATTGAAAAAAT
* *
191138 ATATTATACTTGCTATTTAAAAAA
1 ATATTACACTTGCTATTGAAAAAA
191162 ATAGGACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (25 bp):
ATATTACACTTGCTATTGAAAAAAT
Found at i:191718 original size:27 final size:27
Alignment explanation
Indices: 191676--191733 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
191666 TAGAAGCCAT
* *
191676 AAATTGAAATTTTATATAAACTATCAC
1 AAATTAAAATTCTATATAAACTATCAC
*
191703 AAATTAAAATTCTATATAAATTATCAC
1 AAATTAAAATTCTATATAAACTATCAC
191730 AAAT
1 AAAT
191734 GAGTAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (27 bp):
AAATTAAAATTCTATATAAACTATCAC
Found at i:193833 original size:14 final size:14
Alignment explanation
Indices: 193787--193837 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
193777 TTCTTCTACT
193787 TTATTTATT-TTCACA
1 TTATTTATTATT--CA
193802 TTATTT-TTATTCA
1 TTATTTATTATTCA
* *
193815 ATATTTATTATTTA
1 TTATTTATTATTCA
193829 TTATTTATT
1 TTATTTATT
193838 TACTTTCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 7 0.23
14 16 0.52
15 8 0.26
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTTATTATTCA
Found at i:199614 original size:81 final size:82
Alignment explanation
Indices: 199470--199680 Score: 304
Period size: 80 Copynumber: 2.6 Consensus size: 82
199460 CGAAACACAA
* *
199470 CCACCTAACACCACTACCGCACCTGACATT-AAAAAATACAACAAACCATTAACCCATTGGACTC
1 CCACCTAACACCACTACCACACCTGACATTGAAAAAATACACCAAACCATTAACCCATTGGACTC
199534 TCAAAAAACACCAAA-T
66 TCAAAAAACACCAAAGT
* *
199550 CCACCTAACACCACTACCACACCTAACATTGAAAATATACACCAAACCATTAACCCATTGGACTC
1 CCACCTAACACCACTACCACACCTGACATTGAAAAAATACACCAAACCATTAACCCATTGGACTC
***
199615 TTTTAAAACACCAAAGT
66 TCAAAAAACACCAAAGT
* *
199632 -CACCTAACA-CACTACCACACCTGACACTGAAAACATACACCAAATCCAT
1 CCACCTAACACCACTACCACACCTGACATTGAAAAAATACACCAAA-CCAT
199681 CTATGTCACA
Statistics
Matches: 118, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
80 60 0.51
81 57 0.48
82 1 0.01
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.18
Consensus pattern (82 bp):
CCACCTAACACCACTACCACACCTGACATTGAAAAAATACACCAAACCATTAACCCATTGGACTC
TCAAAAAACACCAAAGT
Found at i:204545 original size:23 final size:23
Alignment explanation
Indices: 204519--204576 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
204509 GATTGTATAA
204519 GGTTGAATCGAAGTCGATTTCAT
1 GGTTGAATCGAAGTCGATTTCAT
204542 GGTTGAATCGAAGTCGATTTCAT
1 GGTTGAATCGAAGTCGATTTCAT
204565 GGTTGAATCGAA
1 GGTTGAATCGAA
204577 TCAAAACGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (23 bp):
GGTTGAATCGAAGTCGATTTCAT
Found at i:206262 original size:15 final size:16
Alignment explanation
Indices: 206232--206267 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
206222 TTATTTCAAA
206232 TTAATTAAATATAAAT
1 TTAATTAAATATAAAT
*
206248 TTAATTAATTA-AAAT
1 TTAATTAAATATAAAT
206263 TTAAT
1 TTAAT
206268 AATCCTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATTAAATATAAAT
Found at i:206340 original size:90 final size:90
Alignment explanation
Indices: 206181--206358 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
206171 CCTAACACAC
* *
206181 CCTTTTATAGCCAAGTTATCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATATAA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATAA
*
206246 ATTTAATTAATTAAAATTTAATAAT
66 ATTTAATTAATTAAAATTAAATAAT
* * *
206271 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATAA
*
206336 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTAAAATTAAATA
206359 TTAGGGATTA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATAA
ATTTAATTAATTAAAATTAAATAAT
Found at i:218891 original size:40 final size:40
Alignment explanation
Indices: 218841--218920 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
218831 ACGGTGTATA
* * * *
218841 AGGTGGGCAAGGC-CTAACCTTAGCACTACGGTGCATTATT
1 AGGTGAGCAAGGCTC-AACCTCAGCACTACAGTGCAATATT
*
218881 AGGTGAGCAAGGCTCGACCTCAGCACTACAGTGCAATATT
1 AGGTGAGCAAGGCTCAACCTCAGCACTACAGTGCAATATT
218921 TGAATCCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
AGGTGAGCAAGGCTCAACCTCAGCACTACAGTGCAATATT
Found at i:224337 original size:45 final size:44
Alignment explanation
Indices: 224199--224382 Score: 201
Period size: 45 Copynumber: 4.2 Consensus size: 44
224189 ACTTCTTCTT
* *
224199 TGATGGGATCGAGCA-AAAAGTGAAGTTGATCCAACTCCTTATG
1 TGATGGAATCGAGCAGAAAAGTGAAGCTGATCCAACTCCTTATG
* * * *
224242 TGATGGAATCTAGC-GAAATAGTGATGCTGACCCAACTCTTTATG
1 TGATGGAATCGAGCAGAAA-AGTGAAGCTGATCCAACTCCTTATG
* *
224286 TGATGGAATCGAGCAAGAAAAGTGAAGGTGATCCAGCTCCTTATG
1 TGATGGAATCGAGC-AGAAAAGTGAAGCTGATCCAACTCCTTATG
* * * * * *
224331 TAATGGAATCGAGAAAGAAAAGTAAATCTGATTCAACTCTTTATG
1 TGATGGAATCGAG-CAGAAAAGTGAAGCTGATCCAACTCCTTATG
224376 TGATGGA
1 TGATGGA
224383 CGAGCCGAGG
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
43 15 0.13
44 34 0.30
45 62 0.54
46 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (44 bp):
TGATGGAATCGAGCAGAAAAGTGAAGCTGATCCAACTCCTTATG
Found at i:229892 original size:19 final size:17
Alignment explanation
Indices: 229844--229884 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
229834 TCTTCATTTA
229844 TGGTTTCCCTTTTATAG
1 TGGTTTCCCTTTTATAG
229861 TGGTTTCCCTTTTATAG
1 TGGTTTCCCTTTTATAG
229878 TGGTTTC
1 TGGTTTC
229885 TACCTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.10, C:0.17, G:0.20, T:0.54
Consensus pattern (17 bp):
TGGTTTCCCTTTTATAG
Found at i:244703 original size:24 final size:24
Alignment explanation
Indices: 244676--244721 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
244666 GCATGACATG
244676 GTACATAGATGTTTTATACATCGT
1 GTACATAGATGTTTTATACATCGT
244700 GTACATAGATGTTTTATACATC
1 GTACATAGATGTTTTATACATC
244722 ATCAGGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
GTACATAGATGTTTTATACATCGT
Found at i:264229 original size:17 final size:17
Alignment explanation
Indices: 264209--264243 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
264199 TATTTGTTAT
264209 ATCAAAATATTAGTTCC
1 ATCAAAATATTAGTTCC
264226 ATCAAAATATTAGTTCC
1 ATCAAAATATTAGTTCC
264243 A
1 A
264244 CAATTTCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (17 bp):
ATCAAAATATTAGTTCC
Found at i:265943 original size:17 final size:17
Alignment explanation
Indices: 265912--265945 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
265902 CATTTTTATT
265912 TCTTTTCTTGTTTCTTC
1 TCTTTTCTTGTTTCTTC
265929 TCTTATTCTTG-TTCTTC
1 TCTT-TTCTTGTTTCTTC
265946 CTCATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.03, C:0.24, G:0.06, T:0.68
Consensus pattern (17 bp):
TCTTTTCTTGTTTCTTC
Found at i:268705 original size:23 final size:23
Alignment explanation
Indices: 268679--268777 Score: 144
Period size: 23 Copynumber: 4.3 Consensus size: 23
268669 AAAGTTTTAT
*
268679 TTTTTTAATTAAACTTCCACTAA
1 TTTTTTAATCAAACTTCCACTAA
268702 TTTTTTAATCAAACTTCCACTAA
1 TTTTTTAATCAAACTTCCACTAA
* *
268725 TTTTTTAATCGAACTTCCAATAA
1 TTTTTTAATCAAACTTCCACTAA
* * *
268748 TTTCTTAATCAAACTTTCACTAC
1 TTTTTTAATCAAACTTCCACTAA
268771 TTTTTTA
1 TTTTTTA
268778 TTTGTTTTGG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.32, C:0.19, G:0.01, T:0.47
Consensus pattern (23 bp):
TTTTTTAATCAAACTTCCACTAA
Found at i:280010 original size:21 final size:21
Alignment explanation
Indices: 279984--280029 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
279974 ATCATATGAT
*
279984 TTTAGATTTTAAGATTTAAAA
1 TTTAGAATTTAAGATTTAAAA
*
280005 TTTAGAATTTATGATTTAAAA
1 TTTAGAATTTAAGATTTAAAA
280026 TTTA
1 TTTA
280030 AGCTTTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (21 bp):
TTTAGAATTTAAGATTTAAAA
Found at i:280959 original size:159 final size:155
Alignment explanation
Indices: 280544--281276 Score: 792
Period size: 153 Copynumber: 4.7 Consensus size: 155
280534 AAAAAAAGTA
** * * *
280544 AGAATTGAAGTTACATATGTATTCTATTG-TGGTATATGAGCATGTGGTTCAAATTTGGTAAAAA
1 AGAATTGAAAATACATATGTATTCTA-CGATGGTTTAGGAGCATGTGGTTCAAATTTGGT-AAAA
* * * * **
280608 C-ATAATTAAAAT-AAGGATGTATTAAAGAAATAAGGAAATTAT--CCAAAATTGAGGGACTAAA
64 CGA-ACTTAAAATAAAGGATGAATTGAAGAAATAAAGAAATTATAAAAAAAATTGAGGGACTAAA
* ** * *
280669 CTGAAAAATAGAAAAGTTGTTCTCTAAAAG
128 TTGAAAAATAGAAAA--AATTATCAAAAAG
* * *
280699 AAGAATTG---A-ACATATGTATTCTATGATGGTTTAGGAGCGTGTGATTCAAATTTGGTAAAAC
1 -AGAATTGAAAATACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAC
* * * *
280760 AAACTTAAGATAAATGATGAATTGAAGAAATAAAGAAATTATAAAAAAAAATTAAGGGACTAAAT
65 GAACTTAAAATAAAGGATGAATTGAAGAAATAAAGAAATTAT-AAAAAAAATTGAGGGACTAAAT
*
280825 TGAAAATTAGAAAAAATTATCAAAAAG
129 TGAAAAATAGAAAAAATTATCAAAAAG
* * * *
280852 AGAAATTGAAAATACATATTTATTTTACGATGATTTAGGAGCATGTGTTTCAAATTTGGTAAAAA
1 AG-AATTGAAAATACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGT-AAAA
* * * **
280917 CCGAACTTAAAATAAATGATGATTTGAATAAATAGGGAAATTATAAAAAAAATTGAGGGACTAAA
64 -CGAACTTAAAATAAAGGATGAATTGAAGAAATAAAGAAATTATAAAAAAAATTGAGGGACTAAA
**
280982 TTGAAAAATAGAAAATTTGTTATCAAAAAG
128 TTGAAAAATAGAAAA--AATTATCAAAAAG
* * ** *
281012 AGGATTGAAAGTACATATGTATTCTATTATGTTTTAGGAGCATGTGGTTCAAATTTGGTAAAACG
1 AGAATTGAAAATACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAACG
* *
281077 GACTTAAAATAAAGGATGAATTGAAGAAA-AAAGAAATTAT--AAAAAA-TGAGGGACTAAATTT
66 AACTTAAAATAAAGGATGAATTGAAGAAATAAAGAAATTATAAAAAAAATTGAGGGACTAAATTG
*
281138 AAAAATA-AAAAAATTATTAAAAAG
131 AAAAATAGAAAAAATTATCAAAAAG
* * *
281162 AGGAATTAAAAGAATACATATGTATTCTACGAAGGTTTAGGAGCATGTGGTTCAAATTTGATAAA
1 A-GAATT-GAA-AATACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAA
* * *
281227 ACGGACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAAATATAAAAAA
63 ACGAACTTAAAATAAAGGATGAATTGAAGAAATAAAGAAATTATAAAAAA
281277 TTGAGTCTTA
Statistics
Matches: 492, Mismatches: 64, Indels: 42
0.82 0.11 0.07
Matches are distributed among these distances:
150 11 0.02
151 18 0.04
152 75 0.15
153 114 0.23
154 15 0.03
155 29 0.06
156 21 0.04
157 68 0.14
158 42 0.09
159 86 0.17
160 13 0.03
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.29
Consensus pattern (155 bp):
AGAATTGAAAATACATATGTATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAACG
AACTTAAAATAAAGGATGAATTGAAGAAATAAAGAAATTATAAAAAAAATTGAGGGACTAAATTG
AAAAATAGAAAAAATTATCAAAAAG
Found at i:285237 original size:160 final size:157
Alignment explanation
Indices: 284974--285439 Score: 573
Period size: 159 Copynumber: 2.9 Consensus size: 157
284964 AGGGTGTTAC
* *
284974 ATTGAGGGACTAAATTGAAAAATATAAAATTTGTTATCAAAAATA-GAATTGAAAGTACATATGT
1 ATTGAGGGACTAAATTGAAAAATAGAAAATTTGTTATCAAAAAGAGGAATTGAAAGTACATATGT
** * * *
285038 ATTCTACGATGGTTTAGGAATATGTGATTCAAATTTGGTAAAAATGGGCTTAAGATAAAGGATGA
66 ATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAATAGACTTAA-ATAAAGGATGA
285103 ATTGAAGAAATAAGGAAATTATAAAAAAAA
130 ATTGAAGAAATAA-GAAA-TATAAAAAAAA
* *
285133 ATTGAGAGACTAAATTGAAAAATAGAAAATTTGTTATCTAAAAGAGGAATTGAAAGTACATATGT
1 ATTGAGGGACTAAATTGAAAAATAGAAAATTTGTTATCAAAAAGAGGAATTGAAAGTACATATGT
*
285198 ATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAAAAATATACTTAAAATAAAGGA
66 ATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGT---AAAAATAGACTT-AAATAAAGGA
* *
285263 TTG-ATTGAAGAAATAAG-AA-ATAATAAATA
127 -TGAATTGAAGAAATAAGAAATATAAAAAAAA
* * ** * *
285292 TTTTAGGGACTAAATTGAAAAATAGAATGTTTGTTAACAAAAAGAGGAATTGAAAGTATAT-TGT
1 ATTGAGGGACTAAATTGAAAAATAGAAAATTTGTTATCAAAAAGAGGAATTGAAAGTACATATGT
* ** * * * *
285356 ATTCTAAGATGGTTTACAAGCATATGGTTCAAATTTGATAAAAAAAGACTTATAATAAAGGACGA
66 ATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAATAGACTTA-AATAAAGGATGA
*
285421 ATTGAAGGAATAATGAAAT
130 ATTGAAGAAATAA-GAAAT
285440 CAGGGACTAA
Statistics
Matches: 267, Mismatches: 29, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
154 2 0.01
155 31 0.12
156 1 0.00
157 2 0.01
158 37 0.14
159 102 0.38
160 55 0.21
161 2 0.01
162 1 0.00
163 30 0.11
164 4 0.01
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.30
Consensus pattern (157 bp):
ATTGAGGGACTAAATTGAAAAATAGAAAATTTGTTATCAAAAAGAGGAATTGAAAGTACATATGT
ATTCTACGATGGTTTAGGAGCATGTGGTTCAAATTTGGTAAAAATAGACTTAAATAAAGGATGAA
TTGAAGAAATAAGAAATATAAAAAAAA
Found at i:286192 original size:13 final size:14
Alignment explanation
Indices: 286162--286194 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
286152 ATGGTTTAAG
*
286162 ATTTAGTGTTTATA
1 ATTTAGGGTTTATA
286176 ATTTAGGGTTT-TA
1 ATTTAGGGTTTATA
286189 ATTTAG
1 ATTTAG
286195 AGGTAGGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (14 bp):
ATTTAGGGTTTATA
Found at i:286825 original size:2 final size:2
Alignment explanation
Indices: 286818--286846 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
286808 TGAATTCTGA
286818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
286847 ATTTTTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:293840 original size:41 final size:42
Alignment explanation
Indices: 293756--293840 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 42
293746 TGCTTGGTAT
*
293756 TGACCTTTTCTGTGATGGAATCAAATAAAAAAAGAAATGTTGA
1 TGACCTTTTCTGTGATGGAATC-AAGAAAAAAAGAAATGTTGA
293799 TGACCTTTTTCTGTGATGGAATC-AGAAAAAAAG-AATGTTGA
1 TGACC-TTTTCTGTGATGGAATCAAGAAAAAAAGAAATGTTGA
293840 T
1 T
293841 CCACCTCATC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 9 0.22
42 9 0.22
43 5 0.12
44 17 0.43
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (42 bp):
TGACCTTTTCTGTGATGGAATCAAGAAAAAAAGAAATGTTGA
Found at i:294074 original size:116 final size:116
Alignment explanation
Indices: 293876--294097 Score: 286
Period size: 116 Copynumber: 1.9 Consensus size: 116
293866 GAGAATGTTG
* * * * *
293876 ATCCATCTCTTTCTGTGATGGAAGAACCAAGGTTGAACAAATTCTTTTTATTAAGAATTTCTTCT
1 ATCCATCTCCTTCTATGATGGAAGAACCAAGGTTGAACAAATTCTTCTCATTAAAAATTTCTTCT
**
293941 CTCACATTGGACAAGTTCTTCTCATTATGAACCATTCTATTATAAATATTA
66 CTCACATCAGACAAGTTCTTCTCATTATGAACCATTCTATTATAAATATTA
* * * *
293992 ATCCATCTCCTTCTATGATGGACGAACTAAGGTTGAGCAAGTTCTTCTCATTAAAAACTTT-TTC
1 ATCCATCTCCTTCTATGATGGAAGAACCAAGGTTGAACAAATTCTTCTCATTAAAAA-TTTCTTC
* * *
294056 T-TCCTCATCAGACGAGTTCTTCTCATTATGAATCATTCTATT
65 TCT-CACATCAGACAAGTTCTTCTCATTATGAACCATTCTATT
294098 GGAAATGCTT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
115 1 0.01
116 86 0.96
117 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (116 bp):
ATCCATCTCCTTCTATGATGGAAGAACCAAGGTTGAACAAATTCTTCTCATTAAAAATTTCTTCT
CTCACATCAGACAAGTTCTTCTCATTATGAACCATTCTATTATAAATATTA
Found at i:297923 original size:18 final size:20
Alignment explanation
Indices: 297878--297924 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
297868 TTTTAGATAA
297878 TTAAAATATGTTTAAAGATT
1 TTAAAATATGTTTAAAGATT
* *
297898 TAAAAATAT-TTT-AAGCTT
1 TTAAAATATGTTTAAAGATT
297916 TTAAAATAT
1 TTAAAATAT
297925 AAAAACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 13 0.54
19 3 0.12
20 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (20 bp):
TTAAAATATGTTTAAAGATT
Found at i:299464 original size:27 final size:27
Alignment explanation
Indices: 299426--299513 Score: 149
Period size: 27 Copynumber: 3.3 Consensus size: 27
299416 TTCAAGTTCA
* *
299426 AGTTCGAGTCGAGCTCAGCAATACTCG
1 AGTTCGAGTCGAGCTTAGTAATACTCG
299453 AGTTCGAGTCGAGCTTAGTAATACTCG
1 AGTTCGAGTCGAGCTTAGTAATACTCG
299480 AGTTCGAGTCGAGCTTAGTAATACTCG
1 AGTTCGAGTCGAGCTTAGTAATACTCG
*
299507 AGATCGA
1 AGTTCGA
299514 CTTGGCTCGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (27 bp):
AGTTCGAGTCGAGCTTAGTAATACTCG
Found at i:299941 original size:29 final size:29
Alignment explanation
Indices: 299908--299972 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
299898 GGTTGAAGAG
299908 TGAGTTGGATAATTAGGGTTTGGATTTTT
1 TGAGTTGGATAATTAGGGTTTGGATTTTT
*
299937 TGAGTTGGATAATTATGGTTTGGATTTTT
1 TGAGTTGGATAATTAGGGTTTGGATTTTT
*
299966 TGTGTTG
1 TGAGTTG
299973 TAAAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (29 bp):
TGAGTTGGATAATTAGGGTTTGGATTTTT
Found at i:300827 original size:12 final size:12
Alignment explanation
Indices: 300810--300844 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
300800 TGTAGATATT
300810 TTTAATTTTTTC
1 TTTAATTTTTTC
300822 TTTAATTTTTTC
1 TTTAATTTTTTC
300834 TTTAATTTTTT
1 TTTAATTTTTT
300845 TATATCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTAATTTTTTC
Found at i:302106 original size:18 final size:17
Alignment explanation
Indices: 302083--302123 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
302073 CATCATATTT
*
302083 ATATTATTCTATGAATTA
1 ATATTATTCCATG-ATTA
302101 ATATTATTCCATGATTA
1 ATATTATTCCATGATTA
*
302118 TTATTA
1 ATATTA
302124 GCTATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (17 bp):
ATATTATTCCATGATTA
Found at i:307208 original size:14 final size:14
Alignment explanation
Indices: 307189--307218 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
307179 ACTTTCTCTT
*
307189 TCATATATCTCATG
1 TCATATATCACATG
307203 TCATATATCACATG
1 TCATATATCACATG
307217 TC
1 TC
307219 TCTTTATCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (14 bp):
TCATATATCACATG
Found at i:313451 original size:18 final size:18
Alignment explanation
Indices: 313428--313536 Score: 101
Period size: 18 Copynumber: 5.8 Consensus size: 18
313418 CTATGAAATT
*
313428 TGTCCCGAAGGACCACTA
1 TGTCCCGAAAGACCACTA
*
313446 TGTCCCGAAGGACCACTA
1 TGTCCCGAAAGACCACTA
313464 TGAAATTACCCGAAAGACCACTA
1 TG----T-CCCGAAAGACCACTA
* *
313487 TGTCCCGAAAGACCAATG
1 TGTCCCGAAAGACCACTA
* * *
313505 TGTCCCGAATGACAACTG
1 TGTCCCGAAAGACCACTA
*
313523 TATCCCGAAAGACC
1 TGTCCCGAAAGACC
313537 GCGTAGACCC
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
18 59 0.77
19 1 0.01
22 1 0.01
23 16 0.21
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:325282 original size:21 final size:23
Alignment explanation
Indices: 325256--325306 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
325246 AGGGAATCGA
325256 TCCCCCCCTG-A-GGAAACCGAT
1 TCCCCCCCTGAAGGGAAACCGAT
** *
325277 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCCTGAAGGGAAACCGAT
325300 TCCCCCC
1 TCCCCCC
325307 ACAGGGGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 8 0.33
22 1 0.04
23 15 0.62
ACGTcount: A:0.20, C:0.43, G:0.20, T:0.18
Consensus pattern (23 bp):
TCCCCCCCTGAAGGGAAACCGAT
Found at i:325314 original size:21 final size:21
Alignment explanation
Indices: 325288--325327 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
325278 CCCCCTTTGA
*
325288 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
325309 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
325328 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:327281 original size:9 final size:8
Alignment explanation
Indices: 327259--327309 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
327249 TTCAACAACA
327259 TTTTGGAT
1 TTTTGGAT
327267 ATTTTGGAT
1 -TTTTGGAT
327276 TGTTT-GAT
1 T-TTTGGAT
327284 TTTGTGGAT
1 TTT-TGGAT
*
327293 TGTTGGA-
1 TTTTGGAT
327300 TTTTGGAT
1 TTTTGGAT
327308 TT
1 TT
327310 ATGAATGGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 8 0.22
8 12 0.33
9 16 0.44
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (8 bp):
TTTTGGAT
Found at i:327293 original size:17 final size:17
Alignment explanation
Indices: 327261--327304 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
327251 CAACAACATT
327261 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
327278 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
327295 TTGGATTTTG
1 TTGGATTTTG
327305 GATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Found at i:331351 original size:19 final size:20
Alignment explanation
Indices: 331304--331353 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
331294 TACTATTTAT
*
331304 TACTATTCACACAATATCAA
1 TACTATTCATACAATATCAA
* * *
331324 TATTGTTCATACAGTA-CAA
1 TACTATTCATACAATATCAA
331343 TACTATTCATA
1 TACTATTCATA
331354 AAAAAATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (20 bp):
TACTATTCATACAATATCAA
Found at i:334613 original size:20 final size:20
Alignment explanation
Indices: 334588--334635 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
334578 ACTGTTGGGC
* *
334588 TTGATATTACTGTAGCAGTA
1 TTGATACTACTATAGCAGTA
334608 TTGATACTACTATAGCAGTA
1 TTGATACTACTATAGCAGTA
*
334628 TCGATACT
1 TTGATACT
334636 CATTTTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
TTGATACTACTATAGCAGTA
Found at i:334732 original size:19 final size:20
Alignment explanation
Indices: 334665--334734 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 20
334655 TTTAGCATTG
* * *
334665 GTACTGTTCACACATTATCA
1 GTACTATTCATACAATATCA
*
334685 GTACTATTTATACAATATCA
1 GTACTATTCATACAATATCA
* * *
334705 -TATTGTTCATATAATA-CA
1 GTACTATTCATACAATATCA
334723 GTACTATTCATA
1 GTACTATTCATA
334735 ATTTTTTTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
18 2 0.05
19 21 0.54
20 16 0.41
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (20 bp):
GTACTATTCATACAATATCA
Found at i:338737 original size:30 final size:30
Alignment explanation
Indices: 338693--338769 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 30
338683 TTACACAACA
* * *
338693 ATCCCTCAATTTTTCTAGAATTTAC-AAATTG
1 ATCCC-CAACTTTTCTAAAACTTACGAAA-TG
*
338724 ATCTCCAACTTTTC-AAAACTTACGAAATG
1 ATCCCCAACTTTTCTAAAACTTACGAAATG
*
338753 ATCCCCAATTTTTCTAA
1 ATCCCCAACTTTTCTAA
338770 GGCTTGTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 21 0.55
30 13 0.34
31 4 0.11
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
ATCCCCAACTTTTCTAAAACTTACGAAATG
Found at i:340671 original size:38 final size:38
Alignment explanation
Indices: 340614--340691 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
340604 GATCGAAGAA
* * *
340614 AATAGTGTCATCGGTCTTTGCCTCTTTCTCGTCATATG
1 AATAGTGTCATCGGCCTTTGCCTCATTCTCATCATATG
*
340652 AATAGTGTCATTGGCCTTTGCCTCATTCTCATCATATG
1 AATAGTGTCATCGGCCTTTGCCTCATTCTCATCATATG
340690 AA
1 AA
340692 AATGGGCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (38 bp):
AATAGTGTCATCGGCCTTTGCCTCATTCTCATCATATG
Found at i:343994 original size:13 final size:13
Alignment explanation
Indices: 343976--344000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
343966 TACAGACGCG
343976 CATATGAAGACTA
1 CATATGAAGACTA
343989 CATATGAAGACT
1 CATATGAAGACT
344001 GTTTAACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (13 bp):
CATATGAAGACTA
Found at i:345644 original size:16 final size:16
Alignment explanation
Indices: 345620--345650 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
345610 TAACTTTAAA
*
345620 GAAAGAAGATAAAATC
1 GAAAAAAGATAAAATC
345636 GAAAAAAGATAAAAT
1 GAAAAAAGATAAAAT
345651 GACATGGACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.16, T:0.13
Consensus pattern (16 bp):
GAAAAAAGATAAAATC
Found at i:349139 original size:22 final size:22
Alignment explanation
Indices: 349114--349159 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
349104 GCATATTCTT
*
349114 CCCCCGATTGTTGATCAATATG
1 CCCCCGATTGTTAATCAATATG
349136 CCCCCGATTGTTAATCAATATG
1 CCCCCGATTGTTAATCAATATG
349158 CC
1 CC
349160 TGATCCACCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (22 bp):
CCCCCGATTGTTAATCAATATG
Found at i:356791 original size:26 final size:22
Alignment explanation
Indices: 356742--356786 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
356732 AAGGTGAAAT
356742 CTATCTGTACCGATAGAAAAAA
1 CTATCTGTACCGATAGAAAAAA
356764 CTATCTGTACCGATAGAAAAAA
1 CTATCTGTACCGATAGAAAAAA
356786 C
1 C
356787 AAACTTGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.22
Consensus pattern (22 bp):
CTATCTGTACCGATAGAAAAAA
Found at i:360313 original size:73 final size:73
Alignment explanation
Indices: 360194--360337 Score: 234
Period size: 73 Copynumber: 2.0 Consensus size: 73
360184 GTATTACATC
* * *
360194 CTTTTGTCCTTTATATCTAGAATAGGCACAAGTCTTGGAATAGTCACACTTGTATAGCCCATATA
1 CTTTTATCCTTTAAATCTAGAATAGGCACAAGTCTTGGAATAGTCACACTTGTATAACCCATATA
360259 TTGTTTTT
66 TTGTTTTT
* * *
360267 CTTTTATCCTTTAAATCTATAATAGGCACAAGTCTTGGAATAGTCACACTTGTATAACCTATCTA
1 CTTTTATCCTTTAAATCTAGAATAGGCACAAGTCTTGGAATAGTCACACTTGTATAACCCATATA
360332 TTGTTT
66 TTGTTT
360338 CTTGATATCT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (73 bp):
CTTTTATCCTTTAAATCTAGAATAGGCACAAGTCTTGGAATAGTCACACTTGTATAACCCATATA
TTGTTTTT
Found at i:361437 original size:20 final size:20
Alignment explanation
Indices: 361400--361438 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
361390 AAACACCGAG
*
361400 TATCAATACCCTATGAACAA
1 TATCAATACCCTAAGAACAA
*
361420 TATCAATACCTTAAGAACA
1 TATCAATACCCTAAGAACA
361439 GGGTATCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.05, T:0.26
Consensus pattern (20 bp):
TATCAATACCCTAAGAACAA
Found at i:364770 original size:19 final size:20
Alignment explanation
Indices: 364734--364771 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
364724 TTTAAATCAT
**
364734 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATTAAATTTTG
364754 TTTTTCAAAA-TAAATTTT
1 TTTTTCAAAATTAAATTTT
364772 TGCTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTTCAAAATTAAATTTTG
Found at i:373543 original size:20 final size:20
Alignment explanation
Indices: 373518--373557 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
373508 CCTTATGTGT
373518 CATATCCGGATTAGCACTAG
1 CATATCCGGATTAGCACTAG
373538 CATATCCGGATTAGCACTAG
1 CATATCCGGATTAGCACTAG
373558 AGTGTAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (20 bp):
CATATCCGGATTAGCACTAG
Found at i:381082 original size:21 final size:21
Alignment explanation
Indices: 381052--381099 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
381042 TCAGCTAAAC
381052 AGTATCGATACTGATACAATG
1 AGTATCGATACTGATACAATG
* *
381073 AGTATTGATACTGATACAATT
1 AGTATCGATACTGATACAATG
381094 AGTATC
1 AGTATC
381100 CATATCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (21 bp):
AGTATCGATACTGATACAATG
Found at i:381269 original size:93 final size:94
Alignment explanation
Indices: 381112--381290 Score: 225
Period size: 93 Copynumber: 1.9 Consensus size: 94
381102 TATCGAGGTG
** ** * *
381112 GGTATCGATACCATTGATTCCAGAATGCAGAAATGGTATTTATACTGTAATAGAGTATCAATACC
1 GGTATCGATACCAAGGATTCCAGAATGCAGAAATGGTATCGATACTGAAAGAGAGTATCAATACC
* * *
381177 ATAGTATAGTAGTATCGATACTAAGAGAA
66 AGAATATAGAAGTATCGATACTAAGAGAA
* * **
381206 GGTATCGATACCAAGGA-TCCAGAATGTAGAAATGGTATCGATACTGAAAGAGATTATTGATACC
1 GGTATCGATACCAAGGATTCCAGAATGCAGAAATGGTATCGATACTGAAAGAGAGTATCAATACC
*
381270 AGAATATAGAAGTATTGATAC
66 AGAATATAGAAGTATCGATAC
381291 CATGGTAGGA
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
93 56 0.79
94 15 0.21
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (94 bp):
GGTATCGATACCAAGGATTCCAGAATGCAGAAATGGTATCGATACTGAAAGAGAGTATCAATACC
AGAATATAGAAGTATCGATACTAAGAGAA
Found at i:381706 original size:54 final size:54
Alignment explanation
Indices: 381632--382116 Score: 690
Period size: 54 Copynumber: 9.0 Consensus size: 54
381622 TACCAAAACA
* * *
381632 CACTATTTGTGCAACATAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGG
* * * *
381686 CATTATTTGTGTAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGG
* * * *
381740 CACTATTTTTTCAACTTAAGAAATTCATAATGAGTTTATGAA-TTTCAGTATTGA
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTC-GTATTGG
* *
381794 CACTATGTGTGCAACTTAAGAAATTCATAATTAGTTTATGAA-TTTCTTATTGG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGG
* * *
381847 CACTGTGTGTACAACTTAAGAAATTCATAACGAGTTTATGAATTTTCGTATTGG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGG
* *
381901 CACTATGTGTGCAACTTAAGAAATTCATAATCAGTTTATGACTTTTCGTATTGG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGG
* * *
381955 CACTATGTGTGCAAATTAAGAAATTCATAATGAGTTTTTGAATTTTC-TGATTGA
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGT-ATTGG
* *
382009 TACTATGTGTGCAACTTAAGAAATTCATAATGAGTTCATGAATTTTCGTATTGG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGG
* *
382063 CACTATGTGTGCAACTTAA-AAAGTTCATAATAAGTTTATGAATTTTTGTATTGG
1 CACTATGTGTGCAACTTAAGAAA-TTCATAATGAGTTTATGAATTTTCGTATTGG
382117 TGTGCAAACT
Statistics
Matches: 387, Mismatches: 39, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
53 50 0.13
54 336 0.87
55 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (54 bp):
CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGG
Found at i:382019 original size:215 final size:216
Alignment explanation
Indices: 381632--382116 Score: 706
Period size: 215 Copynumber: 2.2 Consensus size: 216
381622 TACCAAAACA
* * * * * *
381632 CACTATTTGTGCAACATAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCATTATTTGTG
1 CACTATGTGTACAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTG
* * * * * *
381697 TAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATTTTTTCAACTTAAGAA
66 CAACTTAAGAAATTCATAATCAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAAATTAAGAA
*
381762 ATTCATAATGAGTTTATGAATTTCAGTATTGACACTATGTGTGCAACTTAAGAAATTCATAATTA
131 ATTCATAATGAGTTTATGAATTTCAGTATTGACACTATGTGTGCAACTTAAGAAATTCATAATGA
* *
381827 GTTTATGAA-TTTCTTATTGG
196 GTTCATGAATTTTCGTATTGG
* *
381847 CACTGTGTGTACAACTTAAGAAATTCATAACGAGTTTATGAATTTTCGTATTGGCACTATGTGTG
1 CACTATGTGTACAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTG
* *
381912 CAACTTAAGAAATTCATAATCAGTTTATGACTTTTCGTATTGGCACTATGTGTGCAAATTAAGAA
66 CAACTTAAGAAATTCATAATCAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAAATTAAGAA
* * *
381977 ATTCATAATGAGTTTTTGAATTTTCTG-ATTGATACTATGTGTGCAACTTAAGAAATTCATAATG
131 ATTCATAATGAGTTTATGAA-TTTCAGTATTGACACTATGTGTGCAACTTAAGAAATTCATAATG
382041 AGTTCATGAATTTTCGTATTGG
195 AGTTCATGAATTTTCGTATTGG
* * *
382063 CACTATGTGTGCAACTTAA-AAAGTTCATAATAAGTTTATGAATTTTTGTATTGG
1 CACTATGTGTACAACTTAAGAAA-TTCATAATGAGTTTATGAATTTTCGTATTGG
382117 TGTGCAAACT
Statistics
Matches: 240, Mismatches: 27, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
215 180 0.75
216 60 0.25
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (216 bp):
CACTATGTGTACAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTG
CAACTTAAGAAATTCATAATCAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAAATTAAGAA
ATTCATAATGAGTTTATGAATTTCAGTATTGACACTATGTGTGCAACTTAAGAAATTCATAATGA
GTTCATGAATTTTCGTATTGG
Found at i:385935 original size:14 final size:14
Alignment explanation
Indices: 385913--385946 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
385903 ACGAGTATCG
*
385913 GTACTTGAATAACA
1 GTACCTGAATAACA
385927 GTACCTGAATAACA
1 GTACCTGAATAACA
385941 GTACCT
1 GTACCT
385947 ATACTATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (14 bp):
GTACCTGAATAACA
Found at i:386070 original size:20 final size:18
Alignment explanation
Indices: 386005--386069 Score: 94
Period size: 18 Copynumber: 3.5 Consensus size: 18
385995 GATACAATTA
386005 GTATCGATATTGAGGTGG
1 GTATCGATATTGAGGTGG
386023 GTATCGATATTGAGGTGG
1 GTATCGATATTGAGGTGG
**
386041 GTATCGATACTATGAGGAAG
1 GTATCGATA-T-TGAGGTGG
386061 GTATCGATA
1 GTATCGATA
386070 CCTTTGATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
18 27 0.63
19 1 0.02
20 15 0.35
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.31
Consensus pattern (18 bp):
GTATCGATATTGAGGTGG
Found at i:388003 original size:19 final size:19
Alignment explanation
Indices: 387979--388017 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
387969 AGTAACACAT
387979 TATAGAAGTATCGATACCA
1 TATAGAAGTATCGATACCA
*
387998 TATAGAATTATCGATACCA
1 TATAGAAGTATCGATACCA
388017 T
1 T
388018 GGTAGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (19 bp):
TATAGAAGTATCGATACCA
Found at i:388489 original size:107 final size:108
Alignment explanation
Indices: 388355--388721 Score: 603
Period size: 107 Copynumber: 3.4 Consensus size: 108
388345 TACCAAATGA
* * *
388355 CACTATGTGTGCAACTTAAGAAATTCATAGTGAGTTTATGAATTTCCGTATTAGCACTATTTGTG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTG
*
388420 CAACTTCAGAAATT-ATAATGAGTTTATGAATTTCCGTATTGG
66 CAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
* * * *
388462 CACTATTTATGAAACTTAAGAAATTCATAATGAGTTTATGAATTTCCATATTGGCACTATGTGTG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTG
*
388527 CAACTTAAGAAATTCATAATGAGTTTATGAATTT-CGTATTAG
66 CAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
*
388569 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTG
* *
388634 CAACTTAAGAAATTCATAATGAGTTTATGAATTTCCATATTGA
66 CAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
*
388677 CACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTT
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTT
388722 ATGTGTGGCA
Statistics
Matches: 240, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
107 172 0.72
108 68 0.28
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (108 bp):
CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTG
CAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
Found at i:388514 original size:54 final size:54
Alignment explanation
Indices: 388355--388721 Score: 603
Period size: 54 Copynumber: 6.8 Consensus size: 54
388345 TACCAAATGA
* *
388355 CACTATGTGTGCAACTTAAGAAATTCATAGTGAGTTTATGAATTTCCGTATTAG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
* *
388409 CACTATTTGTGCAACTTCAGAAATT-ATAATGAGTTTATGAATTTCCGTATTGG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
* * * *
388462 CACTATTTATGAAACTTAAGAAATTCATAATGAGTTTATGAATTTCCATATTGG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
*
388516 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTT-CGTATTAG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
*
388569 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGG
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
* *
388623 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCATATTGA
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
*
388677 CACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTT
1 CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTT
388722 ATGTGTGGCA
Statistics
Matches: 293, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
53 99 0.34
54 194 0.66
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (54 bp):
CACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGG
Found at i:388621 original size:161 final size:161
Alignment explanation
Indices: 388352--388721 Score: 643
Period size: 161 Copynumber: 2.3 Consensus size: 161
388342 GATTACCAAA
* *
388352 TGACACTATGTGTGCAACTTAAGAAATTCATAGTGAGTTTATGAATTTCCGTATTAGCACTATTT
1 TGACACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTAGCACTATGT
* *
388417 GTGCAACTTCAGAAATTATAATGAGTTTATGAATTTCCGTATTGGCACTATTTATGAAACTTAAG
66 GTGCAACTTAAGAAATTATAATGAGTTTATGAATTTCCGTATTGGCACTATGTATGAAACTTAAG
388482 AAATTCATAATGAGTTTATGAATTTCCATAT
131 AAATTCATAATGAGTTTATGAATTTCCATAT
*
388513 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTT-CGTATTAGCACTATGT
1 TGACACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTAGCACTATGT
* * *
388577 GTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAA
66 GTGCAACTTAAGAAATT-ATAATGAGTTTATGAATTTCCGTATTGGCACTATGTATGAAACTTAA
388642 GAAATTCATAATGAGTTTATGAATTTCCATAT
130 GAAATTCATAATGAGTTTATGAATTTCCATAT
*
388674 TGACACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTT
1 TGACACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTT
388722 ATGTGTGGCA
Statistics
Matches: 198, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
160 31 0.16
161 167 0.84
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (161 bp):
TGACACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTAGCACTATGT
GTGCAACTTAAGAAATTATAATGAGTTTATGAATTTCCGTATTGGCACTATGTATGAAACTTAAG
AAATTCATAATGAGTTTATGAATTTCCATAT
Found at i:388774 original size:161 final size:160
Alignment explanation
Indices: 388352--388784 Score: 602
Period size: 161 Copynumber: 2.7 Consensus size: 160
388342 GATTACCAAA
* *
388352 TGACACTATGTGTGCAACTTAAGAAATTCATAGTGAGTTTATGAATTTCCGTATTAGCACTATTT
1 TGACACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTT-CGTATTAGCACTATGT
* * *
388417 GTGCAACTTCAGAAA-TTATAATGAGTTTATGAATTTCCGTATTGGCACTATTTATGAAACTTAA
65 GTGCAACTACA-AAATTTATAATGAGTTTATGAATTTTCGTATTGGCACTATGTATGAAACTTAA
388481 GAAATTCATAATGAGTTTATGAATTTCCATAT
129 GAAATTCATAATGAGTTTATGAATTTCCATAT
*
388513 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCGTATTAGCACTATGTG
1 TGACACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCGTATTAGCACTATGTG
* * *
388578 TGCAACTTA-AGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAA
66 TGCAAC-TACA-AAATTTATAATGAGTTTATGAATTTTCGTATTGGCACTATGTATGAAACTTAA
388642 GAAATTCATAATGAGTTTATGAATTTCCATAT
129 GAAATTCATAATGAGTTTATGAATTTCCATAT
* * * * **
388674 TGACACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTATGT-GTGGCACTGGGT
1 TGACACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTT-CGTATTAGCACTATGT
** * * * *
388738 GTGCAAACTACTTAATTTATAGTAAATTTGTGAATTTTCGTATTGGC
65 GTGC-AACTACAAAATTTATAATGAGTTTATGAATTTTCGTATTGGC
388785 CCTACAGGTG
Statistics
Matches: 244, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
160 27 0.11
161 212 0.87
162 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (160 bp):
TGACACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCGTATTAGCACTATGTG
TGCAACTACAAAATTTATAATGAGTTTATGAATTTTCGTATTGGCACTATGTATGAAACTTAAGA
AATTCATAATGAGTTTATGAATTTCCATAT
Found at i:400835 original size:12 final size:12
Alignment explanation
Indices: 400803--400835 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
400793 AGGAAACAAT
*
400803 AATCAAATCCAG
1 AATCAAATTCAG
400815 AATCAAATTCAG
1 AATCAAATTCAG
400827 AATCAAATT
1 AATCAAATT
400836 TAGGTGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (12 bp):
AATCAAATTCAG
Found at i:405919 original size:26 final size:26
Alignment explanation
Indices: 405883--405934 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
405873 ATGGTATGAC
*
405883 GTGGCAGTTTCTAGAAGGTCCAGTCA
1 GTGGCAGTTTCTAGAAGATCCAGTCA
*
405909 GTGGCAGTTTCTAGAAGATCTAGTCA
1 GTGGCAGTTTCTAGAAGATCCAGTCA
405935 ACGCGCCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (26 bp):
GTGGCAGTTTCTAGAAGATCCAGTCA
Found at i:406838 original size:17 final size:18
Alignment explanation
Indices: 406818--406854 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
406808 AATTTCCTTT
*
406818 TATTTAATCTC-TTTTAC
1 TATTTAATATCTTTTTAC
406835 TATTTAATATCTTTTTAC
1 TATTTAATATCTTTTTAC
406853 TA
1 TA
406855 AAACTCCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTAATATCTTTTTAC
Found at i:417343 original size:2 final size:2
Alignment explanation
Indices: 417332--417360 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
417322 TTTCTCAATC
417332 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
417361 AAAACAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:417972 original size:13 final size:13
Alignment explanation
Indices: 417954--417998 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
417944 GTCATAAATC
*
417954 TATGACACGCATT
1 TATGACACACATT
417967 TATGACACACATT
1 TATGACACACATT
***
417980 TATGATGTACATT
1 TATGACACACATT
417993 TATGAC
1 TATGAC
417999 TCGCATTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TATGACACACATT
Found at i:429282 original size:22 final size:24
Alignment explanation
Indices: 429256--429307 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
429246 ATCAATACAA
* *
429256 CAACATCAATAT-TATCTCAT-AC
1 CAACATCAATATCAACCTCATCAC
429278 CAACATCAATATCAACCTCATCAC
1 CAACATCAATATCAACCTCATCAC
429302 CAACAT
1 CAACAT
429308 AATCATAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 12 0.46
23 6 0.23
24 8 0.31
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (24 bp):
CAACATCAATATCAACCTCATCAC
Found at i:430416 original size:36 final size:36
Alignment explanation
Indices: 430374--430449 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
430364 GTTATAGCTA
* *
430374 AAAAATCGTCTTTATTTGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
430410 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
430446 AAAA
1 AAAA
430450 TCCCGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:435398 original size:36 final size:36
Alignment explanation
Indices: 435356--435431 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
435346 GTTATAGCTA
*
435356 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
435392 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
435428 AAAA
1 AAAA
435432 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:441088 original size:18 final size:18
Alignment explanation
Indices: 441061--441095 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
441051 CACCTAAAAC
441061 CATTTGATTTTAATAAAT
1 CATTTGATTTTAATAAAT
* *
441079 CATTTTATTTTACTAAA
1 CATTTGATTTTAATAAA
441096 ATACCAATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
CATTTGATTTTAATAAAT
Found at i:441478 original size:29 final size:30
Alignment explanation
Indices: 441445--441501 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
441435 TTGCTTTTTA
441445 AGTTTAGTGCCTAACGTT-TATTCCGTTCT
1 AGTTTAGTGCCTAACGTTGTATTCCGTTCT
* * *
441474 AGTTTGGTGTCTAACGTTGTATTTCGTT
1 AGTTTAGTGCCTAACGTTGTATTCCGTT
441502 ATTCAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (30 bp):
AGTTTAGTGCCTAACGTTGTATTCCGTTCT
Found at i:444578 original size:31 final size:31
Alignment explanation
Indices: 444540--444604 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
444530 GAACCGAGAC
*
444540 AAAGGTTGGGCACCAAAGTGGAAAACAATTT
1 AAAGGTTGGGCACCAAAGTGAAAAACAATTT
*
444571 AAAGGTTGGGCACCAAATTGAAAAACAATTT
1 AAAGGTTGGGCACCAAAGTGAAAAACAATTT
444602 AAA
1 AAA
444605 TTGGAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (31 bp):
AAAGGTTGGGCACCAAAGTGAAAAACAATTT
Found at i:446245 original size:15 final size:15
Alignment explanation
Indices: 446227--446257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
446217 TGTTTAACAA
446227 ACAAATCAAATAACC
1 ACAAATCAAATAACC
*
446242 ACAAGTCAAATAACC
1 ACAAATCAAATAACC
446257 A
1 A
446258 ATATTCATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.26, G:0.03, T:0.13
Consensus pattern (15 bp):
ACAAATCAAATAACC
Found at i:447468 original size:36 final size:36
Alignment explanation
Indices: 447394--447470 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
447384 CTTCATTGAC
* * *
447394 ACAAATTTTATCTCACTTGAAATAATTTCTCTTTAA
1 ACAAATTTTATCTCACTCGAAATAATTTCACTTCAA
*
447430 ACAAATTTTCATCTCACTCGAGATAATTTCAC-TCAA
1 ACAAATTTT-ATCTCACTCGAAATAATTTCACTTCAA
447466 ACAAA
1 ACAAA
447471 AACTGTAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 17 0.47
37 19 0.53
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (36 bp):
ACAAATTTTATCTCACTCGAAATAATTTCACTTCAA
Found at i:449552 original size:33 final size:31
Alignment explanation
Indices: 449493--449553 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
449483 ATTAATTATA
* * *
449493 TATTATTATTATTATTATTCTCTTATATATT
1 TATTATTATAATTATTATTATATTATATATT
449524 TATTATATATAATATATTATTATATTATAT
1 TATTAT-TATAAT-TATTATTATATTATAT
449554 TTACAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 6 0.24
32 5 0.20
33 14 0.56
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (31 bp):
TATTATTATAATTATTATTATATTATATATT
Found at i:449553 original size:31 final size:29
Alignment explanation
Indices: 449480--449556 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
449470 GTCCGTTTTG
*
449480 ATTATTA-ATTATATATTATTATTATTATT
1 ATTATTATATTATAT-TTATTATTATAATT
*
449509 ATTCTCT-TA-TATATTTATTATATATAATAT
1 ATTAT-TATATTATATTTATTAT-TATAAT-T
449539 ATTATTATATTATATTTA
1 ATTATTATATTATATTTA
449557 CAAATATTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
28 7 0.18
29 15 0.38
30 9 0.23
31 8 0.21
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATTATATTATATTTATTATTATAATT
Found at i:450936 original size:27 final size:28
Alignment explanation
Indices: 450906--450965 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
450896 ATGATAATTT
* *
450906 TATAATTT-TATTTTAATCATTATTTTA
1 TATAATTTGTATTTAAATCATTATTTCA
*
450933 TAT-ATTTGTATTTAAATTATTATTTCA
1 TATAATTTGTATTTAAATCATTATTTCA
450960 TATAAT
1 TATAAT
450966 AGATCATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 22 0.79
28 2 0.07
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (28 bp):
TATAATTTGTATTTAAATCATTATTTCA
Found at i:461597 original size:3 final size:3
Alignment explanation
Indices: 461589--461629 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
461579 TTCACTTCAC
461589 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
461630 CATTGAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:470345 original size:24 final size:24
Alignment explanation
Indices: 470313--470368 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
470303 CTATTCTTTC
470313 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
*
470337 GCTTCAATTGAGCTCAAATTTTAT
1 GCTTCAATTGAGCTCAAATTTTAG
470361 GCTTCAAT
1 GCTTCAAT
470369 CGAACTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:470786 original size:17 final size:18
Alignment explanation
Indices: 470764--470799 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
470754 AATAACATTG
470764 ATAATAA-TAAAATAATA
1 ATAATAATTAAAATAATA
*
470781 ATAATAATTAAATTAATA
1 ATAATAATTAAAATAATA
470799 A
1 A
470800 ATAAATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATAATTAAAATAATA
Done.