Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 155 of 284
Found at i:51942638 original size:25 final size:25
Alignment explanation
Indices: 51942610--51942659 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
51942600 CTTACTAAGC
51942610 ATTGTGTTGTTTATGTTTGCTTTGT
1 ATTGTGTTGTTTATGTTTGCTTTGT
51942635 ATTGTGTTGTTTATGTTTGCTTTGT
1 ATTGTGTTGTTTATGTTTGCTTTGT
51942660 TTGATTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.08, C:0.04, G:0.24, T:0.64
Consensus pattern (25 bp):
ATTGTGTTGTTTATGTTTGCTTTGT
Found at i:51946542 original size:185 final size:184
Alignment explanation
Indices: 51946196--51946576 Score: 541
Period size: 185 Copynumber: 2.1 Consensus size: 184
51946186 TGTTTAGCAA
* * * * * * *
51946196 GAGAGAAAAAAAGGTAGCCGATAGTAGGGGAAAAAAACAATGATTTTAAGTTGAAAGTGTGGTGG
1 GAGAGAAAAAAAGGCAGCCGACAGTAGGGAAAAAAAACAATGATTTTAAGCTAAAAGTATAGTGG
* * *
51946261 GGTTTTACAAAAATTACACAAAAGCATGATTATTATAATGGTAATGCAAATTCTTGCAAATGAAA
66 GGTTTTACAAAAAATACACAAAAGCATGATTATAATAATGGTAATGCAAAATCTTGCAAATGAAA
* * *
51946326 TGAGCCAACCATGTGTTTTGAAGAGGAAAAATGGTGTTTGGTATGAAAGAAAAT
131 TGAGCCAACCATGTGTTTTGAAGAAGAAAAATGGTGTTTGGAAAGAAAGAAAAT
*
51946380 GAGAGCAAAAAAGGCAGCCGACAGT-GGAGAAAAAAAAACAATGATTTTAAGCTAAAAGTATAGT
1 GAGAGAAAAAAAGGCAGCCGACAGTAGG-G-AAAAAAAACAATGATTTTAAGCTAAAAGTATAGT
* * * *
51946444 GTGGG-TTTACAAAAAATACACAAAAGCATGATTATAATCATGGTAATGGAAAATCTTGTAGATG
64 G-GGGTTTTACAAAAAATACACAAAAGCATGATTATAATAATGGTAATGCAAAATCTTGCAAATG
* *
51946508 AAATGAGCCAACCATGTGTTTTTAAGAAGAAAAATGGTGTTTGGAAAGAGAGAAAAT
128 AAATGAGCCAACCATGTGTTTTGAAGAAGAAAAATGGTGTTTGGAAAGAAAGAAAAT
51946565 GAGAGAAAAAAA
1 GAGAGAAAAAAA
51946577 TTTATTAAAT
Statistics
Matches: 173, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
183 2 0.01
184 23 0.13
185 145 0.84
186 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.24
Consensus pattern (184 bp):
GAGAGAAAAAAAGGCAGCCGACAGTAGGGAAAAAAAACAATGATTTTAAGCTAAAAGTATAGTGG
GGTTTTACAAAAAATACACAAAAGCATGATTATAATAATGGTAATGCAAAATCTTGCAAATGAAA
TGAGCCAACCATGTGTTTTGAAGAAGAAAAATGGTGTTTGGAAAGAAAGAAAAT
Found at i:51948767 original size:51 final size:51
Alignment explanation
Indices: 51948691--51948791 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
51948681 TAGTGGCCGG
51948691 CCATGACAAGGGATGATGGGCAAAACATGTTGTGTTAATGGAAAAATAAAA
1 CCATGACAAGGGATGATGGGCAAAACATGTTGTGTTAATGGAAAAATAAAA
*
51948742 CCATGACAAGGGATGATGGGCAAAACATGTTTTGTTAATGGAAAAATAAA
1 CCATGACAAGGGATGATGGGCAAAACATGTTGTGTTAATGGAAAAATAAA
51948792 GTAAGAAGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.23
Consensus pattern (51 bp):
CCATGACAAGGGATGATGGGCAAAACATGTTGTGTTAATGGAAAAATAAAA
Found at i:51950506 original size:47 final size:47
Alignment explanation
Indices: 51950455--51951057 Score: 1010
Period size: 47 Copynumber: 12.7 Consensus size: 47
51950445 TTAGGATTCT
* * *
51950455 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
51950502 ATGTGATGAATGTGAAAGAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTG-AA-AGTGTATATATGTGATAAGGCCTAATGGCCG
51950551 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
51950598 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
51950645 ATGTGATGAATGTGAAAGTGTATATATATGATAAGGTCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
51950692 ATGTGATGAATGTAAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
51950741 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
51950788 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
51950835 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
51950882 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
51950929 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*** * * *
51950976 ATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
51951023 ACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
51951058 TCCCGAAGGG
Statistics
Matches: 529, Mismatches: 23, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
47 439 0.83
48 5 0.01
49 85 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:51950695 original size:190 final size:190
Alignment explanation
Indices: 51950455--51951057 Score: 998
Period size: 190 Copynumber: 3.2 Consensus size: 190
51950445 TTAGGATTCT
*
51950455 ATGTGATGGATGTGAACA-TGCATATATGA-GATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAA-AGTGCATATAT-ATGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51950518 AGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
64 AGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
51950583 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
129 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
51950645 ATGTGATGAATGTGAAAGTGTATATATATGATAAGGTCTAATGGCCGATGTGATGAATGTAAAAG
1 ATGTGATGAATGTGAAAGTGCATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
51950710 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
51950775 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
131 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
51950835 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AA-
1 ATGTGATGAATGTGAAAGTGCATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
51950898 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*** * * *
51950963 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCA
131 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
51951023 ACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGCATATATATGATAAG
51951058 TCCCGAAGGG
Statistics
Matches: 390, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
188 148 0.38
189 4 0.01
190 238 0.61
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (190 bp):
ATGTGATGAATGTGAAAGTGCATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:51952136 original size:42 final size:42
Alignment explanation
Indices: 51952089--51952171 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
51952079 GAAAGTAACG
*
51952089 AAACAATCATATGAACAGTATATTAAGAGATATTAAAGTTCA
1 AAACAATCATATGAACAGTATATTAAGAGAAATTAAAGTTCA
*
51952131 AAACAATCATATGAGCAGTATATTAAGAGAAATTAAAGTTC
1 AAACAATCATATGAACAGTATATTAAGAGAAATTAAAGTTC
51952172 TCGTGAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (42 bp):
AAACAATCATATGAACAGTATATTAAGAGAAATTAAAGTTCA
Found at i:51959153 original size:27 final size:27
Alignment explanation
Indices: 51959122--51959299 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
51959112 TAAATTGTAC
51959122 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
51959149 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
51959175 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
51959203 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
51959231 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
51959258 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51959285 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51959300 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:51959236 original size:82 final size:81
Alignment explanation
Indices: 51959123--51959278 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
51959113 AAATTGTACA
* *
51959123 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
51959187 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
51959204 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
51959269 TGCGAGTTGA
65 TGCGAATTGA
51959279 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:51959290 original size:82 final size:81
Alignment explanation
Indices: 51959119--51959299 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
51959109 GATTAAATTG
* *
51959119 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
51959184 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
51959200 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
51959264 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
51959282 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
51959300 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:51962984 original size:40 final size:40
Alignment explanation
Indices: 51962952--51963263 Score: 480
Period size: 40 Copynumber: 7.8 Consensus size: 40
51962942 CCAGCATGAT
* * *
51962952 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
51962992 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
51963032 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
51963072 TGCTCTCCGGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
51963112 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
51963152 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
51963192 TGCTCTTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
51963232 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
51963264 CTCAATTCTC
Statistics
Matches: 243, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 243 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:51964529 original size:37 final size:37
Alignment explanation
Indices: 51964479--51964557 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
51964469 TTATTACGAA
* * *
51964479 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
51964516 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
51964553 GTCTT
1 GTCTT
51964558 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:51964802 original size:49 final size:49
Alignment explanation
Indices: 51964676--51964980 Score: 492
Period size: 49 Copynumber: 6.3 Consensus size: 49
51964666 CCCTTCGGGA
* * * * *
51964676 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51964723 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51964770 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51964819 CTCATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51964868 CTTATCACATATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51964917 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51964966 CTTATCACATATATA
1 CTTATCACATATATA
51964981 CACTGTCTTG
Statistics
Matches: 239, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 43 0.18
49 195 0.82
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51974054 original size:45 final size:45
Alignment explanation
Indices: 51973990--51974079 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
51973980 TAACATTCAA
51973990 ATTATAACATAGTTGTTCGTATTTTTATTTCACTCTTCCTTCGGG
1 ATTATAACATAGTTGTTCGTATTTTTATTTCACTCTTCCTTCGGG
51974035 ATTATAACATAGTTGTTCGTATTTTTATTTCACTCTTCCTTCGGG
1 ATTATAACATAGTTGTTCGTATTTTTATTTCACTCTTCCTTCGGG
51974080 CATACCATCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (45 bp):
ATTATAACATAGTTGTTCGTATTTTTATTTCACTCTTCCTTCGGG
Found at i:51974415 original size:37 final size:37
Alignment explanation
Indices: 51974365--51974443 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
51974355 TTATTACGAA
* * *
51974365 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
51974402 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
51974439 GTCTT
1 GTCTT
51974444 TAGAGCTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:51974635 original size:47 final size:47
Alignment explanation
Indices: 51974566--51974726 Score: 252
Period size: 47 Copynumber: 3.4 Consensus size: 47
51974556 TCGGGACTTA
*
51974566 TCACATTTATACACTTTCACATCTATCACATTGGCCACTCGGCCCTG
1 TCACATATATACACTTTCACATCTATCACATTGGCCACTCGGCCCTG
51974613 TCACATATATACACTTTCACATCTATCACATTGGCCACTCGGCCCTG
1 TCACATATATACACTTTCACATCTATCACATTGGCCACTCGGCCCTG
* * * * *
51974660 TCACATATATACACTTTCACAT-TCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATCT-ATCACATTGGCCACTCGGCCCTG
51974707 TCACATATATACACTTTCAC
1 TCACATATATACACTTTCAC
51974727 GTATACACAC
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.01
47 106 0.99
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATCTATCACATTGGCCACTCGGCCCTG
Found at i:51975916 original size:99 final size:99
Alignment explanation
Indices: 51975745--51975942 Score: 378
Period size: 99 Copynumber: 2.0 Consensus size: 99
51975735 GTCATATGGT
*
51975745 CACCTTCTAGCTCAACTACACAACGGTCATATGTATTTTTAATCACATCAAGCAATTTAATACAA
1 CACCTTCTAGCTCAACTACACAACGGTCATATGCATTTTTAATCACATCAAGCAATTTAATACAA
51975810 TTCATTCGAACATCAAAAGAAAACCTCAAGGTAC
66 TTCATTCGAACATCAAAAGAAAACCTCAAGGTAC
*
51975844 CACCTTCTAGCTCAACTACACAATGGTCATATGCATTTTTAATCACATCAAGCAATTTAATACAA
1 CACCTTCTAGCTCAACTACACAACGGTCATATGCATTTTTAATCACATCAAGCAATTTAATACAA
51975909 TTCATTCGAACATCAAAAGAAAACCTCAAGGTAC
66 TTCATTCGAACATCAAAAGAAAACCTCAAGGTAC
51975943 TTAGCCCATA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.27
Consensus pattern (99 bp):
CACCTTCTAGCTCAACTACACAACGGTCATATGCATTTTTAATCACATCAAGCAATTTAATACAA
TTCATTCGAACATCAAAAGAAAACCTCAAGGTAC
Found at i:51976317 original size:47 final size:47
Alignment explanation
Indices: 51976251--51976347 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
51976241 CACCATCATG
51976251 TGTAAGTATATACCTTGAGATAATATATAGGTCATACCAATACGTCA
1 TGTAAGTATATACCTTGAGATAATATATAGGTCATACCAATACGTCA
51976298 TGTAAGTATATACCTTGAGATAATATATAGGTCATACCAATACGTCA
1 TGTAAGTATATACCTTGAGATAATATATAGGTCATACCAATACGTCA
51976345 TGT
1 TGT
51976348 GCAATCATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (47 bp):
TGTAAGTATATACCTTGAGATAATATATAGGTCATACCAATACGTCA
Found at i:51980727 original size:20 final size:20
Alignment explanation
Indices: 51980702--51980740 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
51980692 TTTTGTGTAT
51980702 TTGTTAAATAGAAACTAAAA
1 TTGTTAAATAGAAACTAAAA
51980722 TTGTTAAATAGAAACTAAA
1 TTGTTAAATAGAAACTAAA
51980741 GTGTAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (20 bp):
TTGTTAAATAGAAACTAAAA
Found at i:51983148 original size:27 final size:27
Alignment explanation
Indices: 51983093--51983232 Score: 121
Period size: 27 Copynumber: 5.2 Consensus size: 27
51983083 AACAAATCTA
* * *
51983093 TCATTTTACCTTACT-G-GGTATTACAG
1 TCATTTTACCCTA-TAGAGGTATTTCGG
51983119 TCATTTTACCCTATAGAGGTATTTCGG
1 TCATTTTACCCTATAGAGGTATTTCGG
* * *
51983146 TCATTCTACACTATAGGGGTATTTC--
1 TCATTTTACCCTATAGAGGTATTTCGG
51983171 TACAATTTTACCCTAT-GAGAGTATTTCGG
1 T-C-ATTTTACCCTATAGAG-GTATTTCGG
**
51983200 TCATTTTACCCTATTA-AATTATTTCGG
1 TCATTTTACCCTA-TAGAGGTATTTCGG
51983227 TCATTT
1 TCATTT
51983233 GATTGCATAC
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.02
26 16 0.17
27 72 0.77
28 3 0.03
29 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATAGAGGTATTTCGG
Found at i:51983256 original size:27 final size:27
Alignment explanation
Indices: 51983238--51983486 Score: 313
Period size: 27 Copynumber: 9.3 Consensus size: 27
51983228 CATTTGATTG
*
51983238 CATACGGGCAAAATCGTCATTTTATCA
1 CATAAGGGCAAAATCGTCATTTTATCA
* ** *
51983265 CATAAGTGCAAAATTATTATTTTATCA
1 CATAAGGGCAAAATCGTCATTTTATCA
*
51983292 CATAAGGGAAAAATCGTCATTTTATCA
1 CATAAGGGCAAAATCGTCATTTTATCA
* *
51983319 AATAAGGGAAAAATCGTCATTTTATCA
1 CATAAGGGCAAAATCGTCATTTTATCA
*
51983346 CCTAAGGGCAAAATCGTCATTTTATCA
1 CATAAGGGCAAAATCGTCATTTTATCA
* **
51983373 TATAAGAACAAAATCGTCATTTTATCA
1 CATAAGGGCAAAATCGTCATTTTATCA
** *
51983400 C--AAGGATAAAATTGTCATTTTATCA
1 CATAAGGGCAAAATCGTCATTTTATCA
* *
51983425 CATAAGAGCAAAATCGTCATTTTATTA
1 CATAAGGGCAAAATCGTCATTTTATCA
*
51983452 CATAAGGGCAAAATCATCATTTTATCA
1 CATAAGGGCAAAATCGTCATTTTATCA
*
51983479 TATAAGGG
1 CATAAGGG
51983487 TTCAGGTACA
Statistics
Matches: 189, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
25 22 0.12
27 167 0.88
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (27 bp):
CATAAGGGCAAAATCGTCATTTTATCA
Found at i:51983445 original size:79 final size:79
Alignment explanation
Indices: 51983247--51983478 Score: 297
Period size: 79 Copynumber: 2.9 Consensus size: 79
51983237 GCATACGGGC
* ** *
51983247 AAAATCGTCATTTTATCACATAAGTGCAAAATTATTATTTTATCACATAAGGGA-AAAATCGTCA
1 AAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACATAA-GGACAAAATCGTCA
*
51983311 TTTTATCAAATAAGGGA
65 TTTTATC--ACAAGGGA
* * * *
51983328 AAAATCGTCATTTTATCACCTAAGGGCAAAATCGTCATTTTATCATATAAGAACAAAATCGTCAT
1 AAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACATAAGGACAAAATCGTCAT
51983393 TTTATCACAA-GGA
66 TTTATCACAAGGGA
* * * *
51983406 TAAAATTGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATTACATAAGGGCAAAATCATCA
1 -AAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACATAAGGACAAAATCGTCA
51983471 TTTTATCA
65 TTTTATCA
51983479 TATAAGGGTT
Statistics
Matches: 133, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 3 0.02
79 67 0.50
80 2 0.02
81 61 0.46
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (79 bp):
AAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACATAAGGACAAAATCGTCAT
TTTATCACAAGGGA
Found at i:51986680 original size:40 final size:40
Alignment explanation
Indices: 51986636--51987507 Score: 1521
Period size: 40 Copynumber: 21.8 Consensus size: 40
51986626 CCAGCATGAT
* * * * * *
51986636 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* ** * *
51986676 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
51986716 TGCTCTTCG-GAACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACTAGCACGAA
* * *
51986756 TGCTCTTCGAGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* *
51986796 TGCTCTTCGGGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51986836 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51986876 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51986916 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51986956 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51986996 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51987036 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51987076 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
51987116 TGCTCTTCGAGACTTAGCCCGGATACATGACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* *
51987156 TGCTCTTCGGGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
51987196 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51987236 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51987276 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51987316 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51987356 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51987396 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
51987436 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* *
51987476 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGAGACTTAGCCCGGATACATCACT
51987508 CTGAATTCTC
Statistics
Matches: 799, Mismatches: 31, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
39 1 0.00
40 797 1.00
41 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:51988854 original size:37 final size:37
Alignment explanation
Indices: 51988804--51988879 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
51988794 CTTTAGCTCA
*
51988804 GACAAAATCTCCACACGGAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGGAGTCATCGGGTCTTACCCG
*
51988841 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGGAGTCATCGGGTCTTACCCG
51988878 GA
1 GA
51988880 ATATATTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (37 bp):
GACAAAATCTCCACACGGAGTCATCGGGTCTTACCCG
Found at i:51989145 original size:98 final size:98
Alignment explanation
Indices: 51989029--51989208 Score: 290
Period size: 98 Copynumber: 1.8 Consensus size: 98
51989019 CATCGCCTAC
51989029 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCACATTAGCCA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCACATTAGCCA
*
51989094 TTCGGCTTTACCACATAAACATATCTCATATAT
66 TTCGGCCTTACCACATAAACATATCTCATATAT
* * *
51989127 ATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCC
1 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCATACATAGTTCACATTAGCC
* *
51989191 ATTTGGCCTTATCACATA
65 ATTCGGCCTTACCACATA
51989209 TATGCATGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
97 2 0.03
98 73 0.97
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (98 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAGTTCACATTAGCCA
TTCGGCCTTACCACATAAACATATCTCATATAT
Found at i:51989156 original size:50 final size:48
Alignment explanation
Indices: 51989026--51989210 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
51989016 GCACATCGCC
*
51989026 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
51989074 TACATAGTTCACATTAGCCATTCGGCTTTACCACATAAACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
51989124 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* * *
51989172 TACATATTTCACATTAGCCATTTGGCCTTATCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
51989211 TGCATGTTCA
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
48 77 0.64
49 2 0.02
50 42 0.35
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:51989291 original size:94 final size:94
Alignment explanation
Indices: 51989043--51989304 Score: 257
Period size: 98 Copynumber: 2.7 Consensus size: 94
51989033 TTCACACTAG
* * * * *
51989043 CCATTCGGCTTTACCACATATACATATCTCATACATAGT-TCACATTAGCCATTCGGCTTTACCA
1 CCATTCGGCCTTACCACATATGCATATCTCA-ACATA-TATCACATTAGCCATTTGGCCTTATCA
* * *
51989107 CATA-A-ACATATCTCATATATATATTTCACATTGA
64 CATATATGCATGT-TCATAT-T-CA--TCACATTGA
* *
51989141 CCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTTGGCCTTATCAC
1 CCATTCGGCCTTACCACATATGCATATCTCA-ACATATATCACATTAGCCATTTGGCCTTATCAC
*
51989206 ATATATGCATGTTCATATTCATCACATTGG
65 ATATATGCATGTTCATATTCATCACATTGA
* *
51989236 CCATTCGGCCTTATCACACATATGCATGT-TC-ACAT-TCATCACATTGGCCATTTGGCCTTATC
1 CCATTCGGCCTTA-C-CACATATGCATATCTCAACATAT-ATCACATTAGCCATTTGGCCTTATC
*
51989298 TCATATA
63 ACATATA
51989305 CACACAATCA
Statistics
Matches: 145, Mismatches: 13, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
93 1 0.01
94 33 0.23
95 20 0.14
96 3 0.02
97 14 0.10
98 63 0.43
99 7 0.05
100 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (94 bp):
CCATTCGGCCTTACCACATATGCATATCTCAACATATATCACATTAGCCATTTGGCCTTATCACA
TATATGCATGTTCATATTCATCACATTGA
Found at i:51989317 original size:47 final size:47
Alignment explanation
Indices: 51989180--51989304 Score: 205
Period size: 47 Copynumber: 2.7 Consensus size: 47
51989170 CATACATATT
* *
51989180 TCACATTAGCCATTTGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
* *
51989227 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
*
51989274 TCACATTGGCCATTTGGCCTTATCTCATATA
1 TCACATTGGCCATTTGGCCTTATCACATATA
51989305 CACACAATCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (47 bp):
TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:51992101 original size:81 final size:81
Alignment explanation
Indices: 51991881--51992115 Score: 294
Period size: 81 Copynumber: 2.9 Consensus size: 81
51991871 GTATTTTGGT
* * * *
51991881 CATTTGATCACATAAGGGCAAAATCTTCATTCTATCACATAAGGGCAAAATCT-TCATTTTATCA
1 CATTTTATCACATAAGGGCAAAATCATCTTTTTATCACATAAGGGCAAAAT-TGTCATTTTATCA
* * *
51991945 CATAAGGGCAAAATCGT
65 CATTAGGGTAAAATCGA
*
51991962 CATTTTATCACATAAGGGCAAAATCAT-TATTTTATCACATAAGGGCAAAATCGTCATTTTATCA
1 CATTTTATCACATAAGGGCAAAATCATCT-TTTTATCACATAAGGGCAAAATTGTCATTTTATCA
*
51992026 CATTAGGGTAAAATTGA
65 CATTAGGGTAAAATCGA
* * * * * * *
51992043 CATTTTATCACATAAGGGTAAAATCGTCTTTTTATCACATAAAGGTAATATTGCCATTTTATCAT
1 CATTTTATCACATAAGGGCAAAATCATCTTTTTATCACATAAGGGCAAAATTGTCATTTTATCAC
51992108 ATTAGGGT
66 ATTAGGGT
51992116 TCAGGTACGC
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
81 133 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (81 bp):
CATTTTATCACATAAGGGCAAAATCATCTTTTTATCACATAAGGGCAAAATTGTCATTTTATCAC
ATTAGGGTAAAATCGA
Found at i:51992106 original size:27 final size:27
Alignment explanation
Indices: 51991879--51992084 Score: 304
Period size: 27 Copynumber: 7.6 Consensus size: 27
51991869 GGGTATTTTG
*
51991879 GTCATTTGATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
51991906 TTCATTCTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
51991933 TTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
51991960 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
51991987 ATTATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
51992014 GTCATTTTATCACATTAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* *
51992041 GACATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
51992068 GTCTTTTTATCACATAA
1 GTCATTTTATCACATAA
51992085 AGGTAATATT
Statistics
Matches: 162, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:51995538 original size:495 final size:493
Alignment explanation
Indices: 51994610--51995594 Score: 1607
Period size: 495 Copynumber: 2.0 Consensus size: 493
51994600 ATGTTTATTT
*
51994610 AGCCTCTTCATGTGATCTAGAAAATAATTTTAAAACTTGGGTCACTATCAAAAAGTATTTACTTT
1 AGCCTCTTCATGTGATCTAGAAAATAATTTTAAAACTTGCGTCACTATCAAAAAGTATTTACTTT
** *
51994675 AAAATGTTATTAATTCCAAAATCTCGTTTATCGCGGAAGCTTTGAAATGGTTTTGCGTATTCATG
66 AAAACATTATTAATTCCAAAATCTCGTTTATCGCGGAAGCTTTGAAATGGTTTTGCATATTCATG
*
51994740 GTATTTTAGTAAATCATGCACATCTTTTGAAAACCAGCATCCTACCACTAGAAGGTATAAATCAT
131 GTATTTTAGAAAATCATGCACATCTTTTGAAAACCAGCATCCTACCACTAGAAGGTATAAATCAT
* * *
51994805 AATAAAATAATAAAAGCCCAATTAATAAATAAAACTTAAAGAGGCCTTTCAGATATAAATACCCA
196 AATAAAATAATAAAAGCCCAATTAATAAATAAAACTTAAAAAGGCCTTTCACATAAAAATACCCA
* *
51994870 TATAAAATTACTTATAAGTTAAAAGATACATTCAGAAGCGTAAGCTGTTGTGTGTTCACCTCCGA
261 TATAAAACTACTTATAAGTTAAAAGATACATTCAAAAGCGTAAGCTGTTGTGTGTTCACCTCCGA
* * *
51994935 GTCCCTCGCAGCACCAATCCGCCAAAAGGATTACCTGTACAGTTAAAACAGTTAGGTGAGTTTTC
326 GTCCCTCGCAACACCAATCCGCCAAAAAGATTACCTGTACAGTTAAAACAGTTAGGCGAGTTTTC
* *
51995000 AAAAACTCAGTGTGTAATCCCAGCAATAAACAAACAGTGAACAACACAGTCTGGGCCTAAGCCCA
391 AAAAAATCAGTGTGTAATCCCAACAATAAACAAACAGTGAACAACACAGTCTGGGCCTAAGCCCA
*
51995065 TATCAGTAACAGTTCAATATCAGCTAGGGCCTTGGTCA
456 TATCAGTAACAATTCAATATCAGCTAGGGCCTTGGTCA
* *
51995103 AGCCTCTTCGTGTGATCTAGAATATAATTTTAAAACTTGCGTCACTATCAAAAAGTATTTACTTT
1 AGCCTCTTCATGTGATCTAGAAAATAATTTTAAAACTTGCGTCACTATCAAAAAGTATTTACTTT
* * *
51995168 AAAACATTATTAATTCCAAAATCTTGTTTCTCGCGGAAGCTTCTGAAATGGTTTTGCATATTCGT
66 AAAACATTATTAATTCCAAAATCTCGTTTATCGCGGAAGCTT-TGAAATGGTTTTGCATATTCAT
* * *
51995233 GGTATTTTCA-AAAATCATGCACATCTTTTGAAAACCCGCATGCTACCACTAGCAGGTATAAATC
130 GGTATTTT-AGAAAATCATGCACATCTTTTGAAAACCAGCATCCTACCACTAGAAGGTATAAATC
* *
51995297 ATCATAAAATAATAAAAGCCCAAATTAA-AGAATAAATCTTAAAAAGGCCTTTCACATAAAAATA
194 ATAATAAAATAATAAAAGCCC-AATTAATA-AATAAAACTTAAAAAGGCCTTTCACATAAAAATA
*
51995361 CCCATATAAAACTACTTATAAGTTAAAAGATACATTCAAAAGTGTAAGCTGTTGTGTGTTCACCT
257 CCCATATAAAACTACTTATAAGTTAAAAGATACATTCAAAAGCGTAAGCTGTTGTGTGTTCACCT
* * *
51995426 CTGAGTCCCTTGCAACACCGATCCGCCAAAAAGATTACCTGTACAGTTAAAACAGTT-GGACGAG
322 CCGAGTCCCTCGCAACACCAATCCGCCAAAAAGATTACCTGTACAGTTAAAACAGTTAGG-CGAG
* *
51995490 TTTTCAAAAAATCAGTGTGTAATCCCAACGATAAACAAACAGTGAACAACACAGTTTGGGCCTAA
386 TTTTCAAAAAATCAGTGTGTAATCCCAACAATAAACAAACAGTGAACAACACAGTCTGGGCCTAA
*
51995555 GCCCATATCAGTAACAATTCAATATCAGTTAGGGCCTTGG
451 GCCCATATCAGTAACAATTCAATATCAGCTAGGGCCTTGG
51995595 CCCATTCTGT
Statistics
Matches: 454, Mismatches: 33, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
493 100 0.22
494 101 0.22
495 253 0.56
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (493 bp):
AGCCTCTTCATGTGATCTAGAAAATAATTTTAAAACTTGCGTCACTATCAAAAAGTATTTACTTT
AAAACATTATTAATTCCAAAATCTCGTTTATCGCGGAAGCTTTGAAATGGTTTTGCATATTCATG
GTATTTTAGAAAATCATGCACATCTTTTGAAAACCAGCATCCTACCACTAGAAGGTATAAATCAT
AATAAAATAATAAAAGCCCAATTAATAAATAAAACTTAAAAAGGCCTTTCACATAAAAATACCCA
TATAAAACTACTTATAAGTTAAAAGATACATTCAAAAGCGTAAGCTGTTGTGTGTTCACCTCCGA
GTCCCTCGCAACACCAATCCGCCAAAAAGATTACCTGTACAGTTAAAACAGTTAGGCGAGTTTTC
AAAAAATCAGTGTGTAATCCCAACAATAAACAAACAGTGAACAACACAGTCTGGGCCTAAGCCCA
TATCAGTAACAATTCAATATCAGCTAGGGCCTTGGTCA
Found at i:51996095 original size:27 final size:27
Alignment explanation
Indices: 51996033--51996103 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
51996023 TACTATACAG
* * *
51996033 GGGTATTTCGGTCATTCTACCTTATGA
1 GGGTATTTTGGTCATTTTACCCTATGA
*
51996060 AGGTATTTTGGTCATTTTACCCTATGA
1 GGGTATTTTGGTCATTTTACCCTATGA
*
51996087 GGGTATTTTGGTTATTT
1 GGGTATTTTGGTCATTT
51996104 CATCACATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (27 bp):
GGGTATTTTGGTCATTTTACCCTATGA
Found at i:51996130 original size:27 final size:27
Alignment explanation
Indices: 51996100--51996305 Score: 234
Period size: 27 Copynumber: 7.7 Consensus size: 27
51996090 TATTTTGGTT
* * *
51996100 ATTTCATCACATAAGGGCAAAATTGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
* * * *
51996127 ATTTTATCACATAAAGGCAAAATCATT
1 ATTTTATCACATAAGGGTAAAATCGTC
* *
51996154 ATTTTATCATATAAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
51996181 ATTTTATCACATAATGGTAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
**
51996208 ATTTTATCATTTAAGGG-AAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
* *
51996234 ATTTTATCACATATGTGTAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
* * * *
51996261 GTTTTATCACAAAAGGGTAAAATTGCC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
51996288 ATTTTATCATATAAGGGT
1 ATTTTATCACATAAGGGT
51996306 TTAGATACGC
Statistics
Matches: 150, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.15
27 128 0.85
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (27 bp):
ATTTTATCACATAAGGGTAAAATCGTC
Found at i:51996266 original size:80 final size:80
Alignment explanation
Indices: 51996100--51996304 Score: 248
Period size: 80 Copynumber: 2.5 Consensus size: 80
51996090 TATTTTGGTT
* * * * * * *
51996100 ATTTCATCACATAAGGGCAAAATTGTCATTTTATCACATAAAGGCAAAATCATTATTTTATCATA
1 ATTTTATCACATAAGGGTAAAATTGTCATTTTATCA-TTTAAGGGAAAATCATCATTTTATCACA
51996165 TAAGGGTAAAATCATC
65 TAAGGGTAAAATCATC
* * *
51996181 ATTTTATCACATAATGGTAAAATCGTCATTTTATCATTTAAGGGAAAATCGTCATTTTATCACAT
1 ATTTTATCACATAAGGGTAAAATTGTCATTTTATCATTTAAGGGAAAATCATCATTTTATCACAT
* * *
51996246 ATGTGTAAAATCGTC
66 AAGGGTAAAATCATC
* * * *
51996261 GTTTTATCACAAAAGGGTAAAATTGCCATTTTATCATATAAGGG
1 ATTTTATCACATAAGGGTAAAATTGTCATTTTATCATTTAAGGG
51996305 TTTAGATACG
Statistics
Matches: 105, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 73 0.70
81 32 0.30
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.36
Consensus pattern (80 bp):
ATTTTATCACATAAGGGTAAAATTGTCATTTTATCATTTAAGGGAAAATCATCATTTTATCACAT
AAGGGTAAAATCATC
Found at i:51998082 original size:30 final size:30
Alignment explanation
Indices: 51998046--51998106 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
51998036 TTCTCGAGCC
51998046 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
51998076 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
51998106 T
1 T
51998107 GTATTAGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:52016478 original size:40 final size:40
Alignment explanation
Indices: 52015435--52016466 Score: 1947
Period size: 40 Copynumber: 25.8 Consensus size: 40
52015425 GAGAATTGAG
* *
52015435 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015475 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015515 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015555 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015595 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015635 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015675 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015715 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015755 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015795 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015835 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015875 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015915 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015955 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52015995 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52016035 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52016075 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52016115 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52016155 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52016195 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52016235 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52016275 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
52016315 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
52016355 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * ** *
52016395 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * * * *
52016435 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCA
52016467 ATCATGCTGG
Statistics
Matches: 979, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 979 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
Found at i:52031852 original size:40 final size:40
Alignment explanation
Indices: 52031778--52031957 Score: 242
Period size: 39 Copynumber: 4.6 Consensus size: 40
52031768 AACCCAAGTA
* * *
52031778 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
52031817 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
52031857 CCTTCGGGACTTAGCCC-GATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
52031896 CCTTCGGGACTTAGCCCGGATATAATCAA-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
52031935 CCTTCGGGACTTAACCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52031958 CATTCGAATA
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 79 0.63
40 43 0.34
41 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:52031909 original size:79 final size:78
Alignment explanation
Indices: 52031778--52031957 Score: 254
Period size: 79 Copynumber: 2.3 Consensus size: 78
52031768 AACCCAAGTA
* * * * *
52031778 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCCGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
52031843 CAATAGCACAAAAG
66 CAA-AGCACAAAAG
*
52031857 CCTTCGGGACTTAGCCCGATATAATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGATAT-AGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
52031921 TCAAAGCACAAATG
65 TCAAAGCACAAAAG
*
52031935 CCTTCGGGACTTAACCCAGATAT
1 CCTTCGGGACTTAGCCC-GATAT
52031958 CATTCGAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 25 0.27
79 64 0.70
80 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
CAAAGCACAAAAG
Found at i:52037841 original size:69 final size:70
Alignment explanation
Indices: 52037709--52037841 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
52037699 TAGTTTATTA
* * * * *
52037709 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
52037774 CTTAG
66 CTTAG
52037779 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
52037842 GTTATGTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:52038654 original size:115 final size:115
Alignment explanation
Indices: 52038452--52038681 Score: 442
Period size: 115 Copynumber: 2.0 Consensus size: 115
52038442 TCAGGACAGC
52038452 TGCAGTAACGTGATTTTAGAAAATCACTATAAATGTTTGGTGTGGAATTATAGGCTGAATAAAAT
1 TGCAGTAACGTGATTTTAGAAAATCACTATAAATGTTTGGTGTGGAATTATAGGCTGAATAAAAT
52038517 ATAAAATCAAAGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCGTGTAA
66 ATAAAATCAAAGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCGTGTAA
*
52038567 TGCAGTAACGTGATTTTAGAAAATCACTATAAATGTTTGGTGTGGAATTATAGGCTGAATAATAT
1 TGCAGTAACGTGATTTTAGAAAATCACTATAAATGTTTGGTGTGGAATTATAGGCTGAATAAAAT
*
52038632 ATACAATCAAAGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCGTGTAA
66 ATAAAATCAAAGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCGTGTAA
52038682 GCAAAGGAAT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (115 bp):
TGCAGTAACGTGATTTTAGAAAATCACTATAAATGTTTGGTGTGGAATTATAGGCTGAATAAAAT
ATAAAATCAAAGCTTAATTAGTCTAGTTTCTTATAAAAGAGACCGTGTAA
Found at i:52039278 original size:200 final size:200
Alignment explanation
Indices: 52038929--52039336 Score: 762
Period size: 200 Copynumber: 2.0 Consensus size: 200
52038919 TCAAACAGTG
* * *
52038929 AAACAGGGGAAACTTTAAGAAAAATCTGGTATTGATTCGTCAAACCTAAAATTCTGAAAAATTTA
1 AAACATGGGAAACTTTAAGAAAAATCTGGTATTGATTCGCCAAACCTAAAATTATGAAAAATTTA
* *
52038994 TGGATGAAAGATATACGAGTCTATATTCTGGGAAAATTAACGGCAAGTGATTTGGAGTCTTGTAG
66 TGGATGAAAGACATACGAGTCTATATTCAGGGAAAATTAACGGCAAGTGATTTGGAGTCTTGTAG
52039059 CTCCGGTTATAAATAATTTAGTGACCATTGCTCAGGAAAACAGCTCGTAGTGAATATGTGATTTT
131 CTCCGGTTATAAATAATTTAGTGACCATTGCTCAGGAAAACAGCTCGTAGTGAATATGTGATTTT
52039124 GTTGT
196 GTTGT
*
52039129 AAACATGGGAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAACCTAAAATTATGAAAAATTTA
1 AAACATGGGAAACTTTAAGAAAAATCTGGTATTGATTCGCCAAACCTAAAATTATGAAAAATTTA
52039194 TGGATGAAAGACATACGAGTCTATATTCAGGGAAAATTAACGGCAAGTGATTTGGAGTCTTGTAG
66 TGGATGAAAGACATACGAGTCTATATTCAGGGAAAATTAACGGCAAGTGATTTGGAGTCTTGTAG
52039259 CTCCGGTTATAAATAATTTAGTGACCATTGCTCAGGAAAACAGCTCGTAGTGAATATGTGATTTT
131 CTCCGGTTATAAATAATTTAGTGACCATTGCTCAGGAAAACAGCTCGTAGTGAATATGTGATTTT
52039324 GTTGT
196 GTTGT
52039329 AAACATGG
1 AAACATGG
52039337 ATAAAACTTG
Statistics
Matches: 202, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 202 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (200 bp):
AAACATGGGAAACTTTAAGAAAAATCTGGTATTGATTCGCCAAACCTAAAATTATGAAAAATTTA
TGGATGAAAGACATACGAGTCTATATTCAGGGAAAATTAACGGCAAGTGATTTGGAGTCTTGTAG
CTCCGGTTATAAATAATTTAGTGACCATTGCTCAGGAAAACAGCTCGTAGTGAATATGTGATTTT
GTTGT
Found at i:52039658 original size:46 final size:47
Alignment explanation
Indices: 52039544--52039710 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
52039534 TATTTGAATA
*
52039544 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
52039591 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGAT-
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * * *
52039637 AATGTGAAAGTATATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
52039684 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
52039711 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 41 0.38
47 68 0.62
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:52041167 original size:40 final size:40
Alignment explanation
Indices: 52041122--52041313 Score: 285
Period size: 40 Copynumber: 4.8 Consensus size: 40
52041112 GAGAATTGAG
52041122 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
52041162 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
52041202 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
52041242 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
52041282 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
52041314 ATCATGCTGG
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:52047020 original size:27 final size:27
Alignment explanation
Indices: 52046990--52047068 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
52046980 CTCAACGAGT
52046990 TCGGATGCCTGGTTACATCTCACGAAC
1 TCGGATGCCTGGTTACATCTCACGAAC
* **
52047017 TCGGA---C----T-CAACTCAACGAGT
1 TCGGATGCCTGGTTACATCTC-ACGAAC
52047037 TCGGATGCCTGGTTACATCTCACGAAC
1 TCGGATGCCTGGTTACATCTCACGAAC
52047064 TCGGA
1 TCGGA
52047069 CTCAACTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 18
0.61 0.10 0.30
Matches are distributed among these distances:
19 5 0.14
20 10 0.27
23 1 0.03
24 1 0.03
27 15 0.41
28 5 0.14
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (27 bp):
TCGGATGCCTGGTTACATCTCACGAAC
Found at i:52047034 original size:47 final size:47
Alignment explanation
Indices: 52046966--52047137 Score: 253
Period size: 47 Copynumber: 3.7 Consensus size: 47
52046956 ATCCATAAAT
52046966 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACATCTCAC
52047013 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACATCTCAC
* * * *
52047060 GAACTCGGACTCAACTCAACGAGTTCGGA--CAT--TTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACAT-C-TCA-C
52047106 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
52047138 TCAACCATCC
Statistics
Matches: 116, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
43 5 0.04
44 1 0.01
45 4 0.03
46 29 0.25
47 76 0.66
48 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACATCTCAC
Found at i:52047082 original size:94 final size:93
Alignment explanation
Indices: 52046966--52047137 Score: 251
Period size: 93 Copynumber: 1.8 Consensus size: 93
52046956 ATCCATAAAT
* *
52046966 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGGTTACAT-C-TCA-CGAACTCGGACTCAAC
1 GAACTCGGACTCAACTCAACGAGTTCGGA--CAT--TTACATCCATAAGCGAACTCGGACTCAAC
52047028 TCAACGAGTTCGGATGCCTGGTTACATCTCAC
62 TCAACGAGTTCGGATGCCTGGTTACATCTCAC
* *
52047060 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATAAGCGAACTCGGACTCAACTCAA
52047125 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52047138 TCAACCATCC
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
90 5 0.07
91 1 0.01
92 4 0.06
93 32 0.45
94 29 0.41
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATAAGCGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTGGTTACATCTCAC
Found at i:52049588 original size:15 final size:15
Alignment explanation
Indices: 52049531--52049610 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
52049521 CAAAGATAAC
*
52049531 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52049545 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
52049560 GAGAAA-CCTGGAATA
1 AAGAAATCC-AGAATA
52049575 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
52049590 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
52049605 AAGAAA
1 AAGAAA
52049611 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 13 0.25
15 35 0.66
16 5 0.09
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52049619 original size:15 final size:15
Alignment explanation
Indices: 52049542--52049619 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
52049532 AGAAAACCGA
52049542 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
52049557 ATAGAGAAA-CCTGG
1 ATAAAGAAATCCAAG
52049571 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
52049586 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
52049602 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52049617 ATA
1 ATA
52049620 CGATACTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
14 5 0.10
15 40 0.80
16 5 0.10
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52055837 original size:13 final size:13
Alignment explanation
Indices: 52055819--52055844 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52055809 TGAATTGACA
52055819 TGTATGAAAATTT
1 TGTATGAAAATTT
52055832 TGTATGAAAATTT
1 TGTATGAAAATTT
52055845 AGTCGTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TGTATGAAAATTT
Found at i:52058382 original size:42 final size:43
Alignment explanation
Indices: 52058326--52058418 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
52058316 GATTTATGTA
** * *
52058326 TAAGACCATGTCTGGGATATCGGCATCG-TATTTG-ATTTCGTG
1 TAAGACCATGTCTGGGATAGAGGCATCGATA-TTGAATTACATG
*
52058368 TAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTGGGATAGAGGCATCGATATTGAATTACATG
52058411 TAAGACCA
1 TAAGACCA
52058419 CGTCCAGGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTCTGGGATAGAGGCATCGATATTGAATTACATG
Found at i:52059635 original size:65 final size:65
Alignment explanation
Indices: 52059526--52059654 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
52059516 AGTCTGAATT
* *
52059526 AAATGTTATGTCTGTCTAGTAATTCCTTGTAACCCTAATCCGATGTCGGTTATAGGTTAGGGGTA
1 AAATGTTATGTCTGTCTAGTAATGCCTCGTAACCCTAATCCGATGTCGGTTATAGGTTAGGGGTA
* * * *
52059591 AAATGTTATGTCTGTTTGGTAATGCCTCGTAACCCTAATTCGATGTCGGTTATGGGTTAGGGGT
1 AAATGTTATGTCTGTCTAGTAATGCCTCGTAACCCTAATCCGATGTCGGTTATAGGTTAGGGGT
52059655 GTTACATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (65 bp):
AAATGTTATGTCTGTCTAGTAATGCCTCGTAACCCTAATCCGATGTCGGTTATAGGTTAGGGGTA
Found at i:52065500 original size:21 final size:20
Alignment explanation
Indices: 52065469--52065509 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
52065459 AAGGTACTAA
* *
52065469 CATATACATTATATGACTTT
1 CATATACATTAAATCACTTT
52065489 CATATAACATTAAATCACTTT
1 CATAT-ACATTAAATCACTTT
52065510 AAGTACACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (20 bp):
CATATACATTAAATCACTTT
Found at i:52066550 original size:19 final size:20
Alignment explanation
Indices: 52066517--52066554 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
52066507 TTATAATATC
*
52066517 ATAAATAATATGAATAAAAA
1 ATAAATAATAGGAATAAAAA
52066537 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
52066555 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
ATAAATAATAGGAATAAAAA
Found at i:52067643 original size:25 final size:25
Alignment explanation
Indices: 52067609--52067721 Score: 103
Period size: 24 Copynumber: 4.6 Consensus size: 25
52067599 AAGGTTATGC
52067609 GGCACTATGTGTGC-AAAAACTAAGT
1 GGCACTATGTGTGCGAAAAA-TAAGT
* *
52067634 GGCACTATGTGTGCG-AGATTACA-T
1 GGCACTATGTGTGCGAAAAATA-AGT
*
52067658 GGCACTATATGTGCGAGAAAAT--GT
1 GGCACTATGTGTGCGA-AAAATAAGT
*
52067682 GGCACTATGTGTGCGAATAAGTAAG-
1 GGCACTATGTGTGCGAA-AAATAAGT
*
52067707 AGCACTATGTGTGCG
1 GGCACTATGTGTGCG
52067722 GACTTTCAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
23 1 0.01
24 36 0.50
25 31 0.43
26 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (25 bp):
GGCACTATGTGTGCGAAAAATAAGT
Found at i:52067662 original size:49 final size:48
Alignment explanation
Indices: 52067586--52067697 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 48
52067576 AGAAATTTCA
* * ** *
52067586 GCACTATGTGTGCAAGGTTATGCGGCACTATGTGTGC-A-AAAACTAAGTG
1 GCACTATGTGTGCGAGATTACACGGCACTATATGTGCGAGAAAA-T--GTG
*
52067635 GCACTATGTGTGCGAGATTACATGGCACTATATGTGCGAGAAAATGTG
1 GCACTATGTGTGCGAGATTACACGGCACTATATGTGCGAGAAAATGTG
52067683 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
52067698 ATAAGTAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 18 0.33
49 31 0.56
50 2 0.04
51 4 0.07
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (48 bp):
GCACTATGTGTGCGAGATTACACGGCACTATATGTGCGAGAAAATGTG
Found at i:52069008 original size:50 final size:50
Alignment explanation
Indices: 52068930--52069186 Score: 266
Period size: 50 Copynumber: 5.1 Consensus size: 50
52068920 TGGGTATTAC
*
52068930 ATACAAGATCAAATATAATATCACATATGTGCTTACCCATATGGCCGAAT
1 ATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAAT
* * * * *
52068980 ATGCAAGACCAAATTTAATATCACATATGTGCTTAGCTATATGGACGAAT
1 ATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAAT
* * * * * * *
52069030 TTGCAAGATCAAATTTAACATCACATATGTACTTACTTATATGGCTGAAT
1 ATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAAT
* * *
52069080 ATACAA-ATTCAAATATAATATCACATTTGTGCATACCT-TCATGGCCAAAT
1 ATACAAGA-TCAAATATAATATCACATATGTGCTTACCTAT-ATGGCCGAAT
* * * * * * * *
52069130 ATTCAAGATCCAAGACAACATCACATATGTACATACCTATGTGGCCGAAT
1 ATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAAT
52069180 ATACAAG
1 ATACAAG
52069187 GTCATTTAGC
Statistics
Matches: 169, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.01
50 165 0.98
51 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (50 bp):
ATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAAT
Found at i:52075607 original size:43 final size:43
Alignment explanation
Indices: 52075551--52075676 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
52075541 TATCATATAT
* * * ** *
52075551 CAATGCCACTGTCCCAAACAAGGTCTTATGCGAAATCATAATA
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATA
** * * *
52075594 CGGTGTCAATGTCCCAGACATGGTTTTACACGTAATCACAATA
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATA
* *
52075637 CAATGCCAATGTCCCAGACATGGTCTTACATGCAATCACA
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
52075677 TCTCGGTAAC
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATA
Found at i:52075888 original size:21 final size:21
Alignment explanation
Indices: 52075862--52075909 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
52075852 GAACTTACCT
52075862 TAGTCGTAGAAATAATGAAAG
1 TAGTCGTAGAAATAATGAAAG
52075883 TAGTCGTAGAAATAATGAAAG
1 TAGTCGTAGAAATAATGAAAG
52075904 TAGTCG
1 TAGTCG
52075910 ATTAATCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (21 bp):
TAGTCGTAGAAATAATGAAAG
Found at i:52076740 original size:8 final size:8
Alignment explanation
Indices: 52076727--52076751 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52076717 TAATGTTTTT
52076727 AAAAGGTA
1 AAAAGGTA
52076735 AAAAGGTA
1 AAAAGGTA
52076743 AAAAGGTA
1 AAAAGGTA
52076751 A
1 A
52076752 TTAAAGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (8 bp):
AAAAGGTA
Found at i:52077658 original size:28 final size:28
Alignment explanation
Indices: 52077627--52077705 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
52077617 GACATCAAAT
* *
52077627 ATGGCACTTAGTGTACAAAATATTGAGG
1 ATGGCACTTAGTGTGCAAAATATTGAGA
* ** *
52077655 ATGGCACTTAATGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTGCAAAATATTGAGA
52077683 ATGGCACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCAAAATAT
52077706 CAAATGATTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAATATTGAGA
Found at i:52081362 original size:30 final size:29
Alignment explanation
Indices: 52081326--52081395 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 29
52081316 CTTTTCTACA
52081326 AGTTCAGTTTAGCTCACCGAGCTCACCTTC
1 AGTTCAG-TTAGCTCACCGAGCTCACCTTC
52081356 AGTTC----AGCTCACCGAGCTCACCTTC
1 AGTTCAGTTAGCTCACCGAGCTCACCTTC
52081381 AGTTCAAGTTAGCTC
1 AGTTC-AGTTAGCTC
52081396 CCTTGTAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
25 25 0.71
30 10 0.29
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.29
Consensus pattern (29 bp):
AGTTCAGTTAGCTCACCGAGCTCACCTTC
Found at i:52081364 original size:25 final size:25
Alignment explanation
Indices: 52081328--52081386 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
52081318 TTTCTACAAG
*
52081328 TTCAGTTTAGCTCACCGAGCTCACC
1 TTCAGTTCAGCTCACCGAGCTCACC
52081353 TTCAGTTCAGCTCACCGAGCTCACC
1 TTCAGTTCAGCTCACCGAGCTCACC
52081378 TTCAGTTCA
1 TTCAGTTCA
52081387 AGTTAGCTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.36, G:0.15, T:0.29
Consensus pattern (25 bp):
TTCAGTTCAGCTCACCGAGCTCACC
Found at i:52083112 original size:11 final size:11
Alignment explanation
Indices: 52083096--52083125 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
52083086 ATACAAGTTA
52083096 AAAAAAATTCG
1 AAAAAAATTCG
52083107 AAAAAAATTCG
1 AAAAAAATTCG
52083118 AAAAAAAT
1 AAAAAAAT
52083126 AAAAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:52086947 original size:57 final size:57
Alignment explanation
Indices: 52086880--52086993 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
52086870 CAAACAAAAC
* *
52086880 CGAACAGCCCTTGGTGTGAAAGGAATAATCGGGTGGGTGTGAACAGCCTTAATTTTG
1 CGAACAGCCCTTGGTGTGAAAGAAATAATCGGGTGGGTGTGAACAACCTTAATTTTG
52086937 CGAACAGCCCTTGGTGTGAAAGAAATAATCGGGTGGGTGTGAACAACCTTAATTTTG
1 CGAACAGCCCTTGGTGTGAAAGAAATAATCGGGTGGGTGTGAACAACCTTAATTTTG
52086994 TCTTGGGCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (57 bp):
CGAACAGCCCTTGGTGTGAAAGAAATAATCGGGTGGGTGTGAACAACCTTAATTTTG
Found at i:52087805 original size:50 final size:50
Alignment explanation
Indices: 52087737--52087837 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
52087727 TTTTATGATA
*
52087737 TAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAG
1 TAATATGAGGTATTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAG
*
52087787 TAATATGGGGTATTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAG
1 TAATATGAGGTATTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAG
52087837 T
1 T
52087838 GAAAACGAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.42
Consensus pattern (50 bp):
TAATATGAGGTATTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAG
Found at i:52088524 original size:46 final size:46
Alignment explanation
Indices: 52088464--52088724 Score: 414
Period size: 46 Copynumber: 5.7 Consensus size: 46
52088454 ATGGTTGAGT
52088464 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
* * * * *
52088510 GTCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
52088556 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
* * * * *
52088602 GTCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
52088648 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
* *
52088694 GTCCGAGCTTGTTGAGTTGAGTCCGAGTTCA
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCA
52088725 CTTAGGGGCG
Statistics
Matches: 193, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 193 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
GTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
Found at i:52088603 original size:92 final size:92
Alignment explanation
Indices: 52088463--52088728 Score: 532
Period size: 92 Copynumber: 2.9 Consensus size: 92
52088453 GATGGTTGAG
52088463 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCCGAGCTTGTTGAGTT
1 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCCGAGCTTGTTGAGTT
52088528 GAGTCCGAGTTCACTTATGGATGCAAA
66 GAGTCCGAGTTCACTTATGGATGCAAA
52088555 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCCGAGCTTGTTGAGTT
1 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCCGAGCTTGTTGAGTT
52088620 GAGTCCGAGTTCACTTATGGATGCAAA
66 GAGTCCGAGTTCACTTATGGATGCAAA
52088647 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCCGAGCTTGTTGAGTT
1 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCCGAGCTTGTTGAGTT
52088712 GAGTCCGAGTTCACTTA
66 GAGTCCGAGTTCACTTA
52088729 GGGGCGGGTT
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 174 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (92 bp):
TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCCGAGCTTGTTGAGTT
GAGTCCGAGTTCACTTATGGATGCAAA
Found at i:52088990 original size:19 final size:20
Alignment explanation
Indices: 52088953--52088990 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52088943 ATAAGGTGGT
52088953 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
52088973 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
52088991 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:52091182 original size:24 final size:24
Alignment explanation
Indices: 52091150--52091197 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
52091140 TGCAGCCAGT
52091150 GTAGGGAACTCGAGATTTGTTAAA
1 GTAGGGAACTCGAGATTTGTTAAA
52091174 GTAGGGAACTCGAGATTTGTTAAA
1 GTAGGGAACTCGAGATTTGTTAAA
52091198 CCCGAGTGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (24 bp):
GTAGGGAACTCGAGATTTGTTAAA
Found at i:52096174 original size:46 final size:46
Alignment explanation
Indices: 52096124--52096433 Score: 485
Period size: 46 Copynumber: 6.7 Consensus size: 46
52096114 TGGTTGAGCA
*
52096124 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
52096170 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
52096216 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
52096262 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
52096308 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
52096354 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
52096400 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52096434 GGGGCGGGTT
Statistics
Matches: 238, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 238 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:52096281 original size:92 final size:92
Alignment explanation
Indices: 52096124--52096433 Score: 602
Period size: 92 Copynumber: 3.4 Consensus size: 92
52096114 TGGTTGAGCA
* *
52096124 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGA
1 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGA
52096189 GTCCGAGTTCATTTATGGATGCGAACG
66 GTCCGAGTTCATTTATGGATGCGAACG
52096216 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGA
1 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGA
52096281 GTCCGAGTTCATTTATGGATGCGAACG
66 GTCCGAGTTCATTTATGGATGCGAACG
52096308 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGA
1 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGA
52096373 GTCCGAGTTCATTTATGGATGCGAACG
66 GTCCGAGTTCATTTATGGATGCGAACG
52096400 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
52096434 GGGGCGGGTT
Statistics
Matches: 216, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 216 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (92 bp):
TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGA
GTCCGAGTTCATTTATGGATGCGAACG
Found at i:52096694 original size:19 final size:20
Alignment explanation
Indices: 52096657--52096694 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52096647 ATAAGGTGGT
52096657 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
52096677 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
52096695 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:52097677 original size:39 final size:39
Alignment explanation
Indices: 52097623--52097704 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
52097613 TCTTGTAACT
52097623 ATGACGCGAGTAGCTAGAAAGCTGTGAATGTAGAAACAA
1 ATGACGCGAGTAGCTAGAAAGCTGTGAATGTAGAAACAA
52097662 ATGACGCGAGTAGCTAGAAAGCTGTGAATGTAGAAACAA
1 ATGACGCGAGTAGCTAGAAAGCTGTGAATGTAGAAACAA
52097701 ATGA
1 ATGA
52097705 TTTGAAGTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.18
Consensus pattern (39 bp):
ATGACGCGAGTAGCTAGAAAGCTGTGAATGTAGAAACAA
Found at i:52099550 original size:15 final size:15
Alignment explanation
Indices: 52099530--52099577 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
52099520 TCAAAGATGG
52099530 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
52099545 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
52099559 GTTTATGGATATAAA
1 GTTTATGGATATGAA
52099574 GTTT
1 GTTT
52099578 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:52099564 original size:14 final size:14
Alignment explanation
Indices: 52099524--52099567 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
52099514 AAGGATTCAA
52099524 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
52099538 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
52099553 AGATGGGTTTATGG
1 AGATGGGTTTATGG
52099567 A
1 A
52099568 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:52099593 original size:29 final size:29
Alignment explanation
Indices: 52099524--52099583 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
52099514 AAGGATTCAA
*
52099524 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
52099553 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
52099582 AG
1 AG
52099584 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:52101405 original size:37 final size:37
Alignment explanation
Indices: 52101355--52101434 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
52101345 CTTATTACGA
* *
52101355 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
52101392 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
52101429 GGTCTT
1 AGTCTT
52101435 TAGAGTCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:52101624 original size:47 final size:47
Alignment explanation
Indices: 52101573--52101703 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 47
52101563 TTATACACTT
* *
52101573 TCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACATGC
1 TCACATTCATCACATTGGCCATTCGGCCTTATCTCACATACACATGC
* * ** *
52101620 TCACATTCATCACATTGGCCACTCGGCCTTATCTCATATATGCATGT
1 TCACATTCATCACATTGGCCATTCGGCCTTATCTCACATACACATGC
*
52101667 TCACATTCATCACATTGGCCATTCGGCCCTAT-TCACA
1 TCACATTCATCACATTGGCCATTCGGCCTTATCTCACA
52101704 CATATACACT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 4 0.05
47 70 0.95
ACGTcount: A:0.25, C:0.33, G:0.11, T:0.31
Consensus pattern (47 bp):
TCACATTCATCACATTGGCCATTCGGCCTTATCTCACATACACATGC
Found at i:52105510 original size:13 final size:13
Alignment explanation
Indices: 52105477--52105520 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
52105467 TTAAAGAAGC
52105477 AACTCATTAAATTA
1 AACTCATTAAA-TA
* *
52105491 AATTCATCAAATA
1 AACTCATTAAATA
*
52105504 AACTCATTTAATA
1 AACTCATTAAATA
52105517 AACT
1 AACT
52105521 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (13 bp):
AACTCATTAAATA
Found at i:52110318 original size:31 final size:31
Alignment explanation
Indices: 52110280--52110339 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
52110270 GTATGAAGGG
* *
52110280 TAAGAACGAAATGGTATTATGAAATGGTTCT
1 TAAGAACGAAATGGCATTAAGAAATGGTTCT
52110311 TAAGAACGAAATGGCATTAAGAAATGGTT
1 TAAGAACGAAATGGCATTAAGAAATGGTT
52110340 TGAATGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (31 bp):
TAAGAACGAAATGGCATTAAGAAATGGTTCT
Found at i:52115943 original size:19 final size:19
Alignment explanation
Indices: 52115919--52115958 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52115909 AGCTCCCTTG
52115919 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
52115938 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
52115957 TA
1 TA
52115959 TCAGCTCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:52120381 original size:41 final size:41
Alignment explanation
Indices: 52120324--52120407 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
52120314 AGAAAATGAA
52120324 TACCTTACCTGATACGAACCATCTCGGGAAGAGTCGAGTCG
1 TACCTTACCTGATACGAACCATCTCGGGAAGAGTCGAGTCG
52120365 TACCTTACCTGATACGAACCATCTCGGGAAGAGTCGAGTCG
1 TACCTTACCTGATACGAACCATCTCGGGAAGAGTCGAGTCG
52120406 TA
1 TA
52120408 TGTAGATGGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (41 bp):
TACCTTACCTGATACGAACCATCTCGGGAAGAGTCGAGTCG
Found at i:52120541 original size:14 final size:14
Alignment explanation
Indices: 52120497--52120541 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
52120487 ACGAATGGAA
* *
52120497 GGTAGGAACGAAAG
1 GGTAGGAACAAAAT
52120511 GGTAGGAACAAAAT
1 GGTAGGAACAAAAT
* *
52120525 GGTATGAACAAATT
1 GGTAGGAACAAAAT
52120539 GGT
1 GGT
52120542 TGGTTTAGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.33, T:0.18
Consensus pattern (14 bp):
GGTAGGAACAAAAT
Found at i:52122593 original size:46 final size:46
Alignment explanation
Indices: 52122541--52122715 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
52122531 TGGTTGAGCA
52122541 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
52122587 TTCGAACTCGTTGAGTTGAGTCCGAG-TC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
52122631 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
52122679 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52122716 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 3 0.03
45 2 0.02
46 83 0.78
47 2 0.02
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52122695 original size:92 final size:92
Alignment explanation
Indices: 52122538--52122705 Score: 291
Period size: 92 Copynumber: 1.8 Consensus size: 92
52122528 GGATGGTTGA
* ** *
52122538 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
52122603 TGAGTCCGAGTCGTGAGATGTAACTAG
66 TGAGTCCGAGTCGTGAGATGTAACTAG
*
52122630 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
52122695 TGAGTCCGAGT
66 TGAGTCCGAGT
52122706 TCGCTTATGG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTCGTGAGATGTAACTAG
Found at i:52129059 original size:6 final size:6
Alignment explanation
Indices: 52129041--52129160 Score: 79
Period size: 6 Copynumber: 19.3 Consensus size: 6
52129031 AAGAAACATT
* *
52129041 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
52129090 ATCAGA ATCAGT ATCAGGTA A-CAGA AT-AGAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAG-A ATCAGA ATCAGA ATCA-G-A
*
52129141 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
52129161 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
5 8 0.09
6 63 0.70
7 16 0.18
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:52129086 original size:31 final size:31
Alignment explanation
Indices: 52129025--52129160 Score: 161
Period size: 31 Copynumber: 4.4 Consensus size: 31
52129015 TAACCCATTA
* * *
52129025 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* * *
52129055 CAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
52129086 CAGAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
52129117 -AGAAATCAGAATCAGTATCAGGTAACAGAAT
1 CAG-AATCAGAATCAGTATCAGGTAACAGAAT
*
52129148 CAAAAATCAGAAT
1 C-AGAATCAGAAT
52129161 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
30 17 0.19
31 62 0.68
32 11 0.12
33 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:52129116 original size:19 final size:19
Alignment explanation
Indices: 52129092--52129149 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
52129082 GAATCAGAAT
52129092 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
52129111 CAGAAT-AG-A--A---AT
1 CAGAATCAGTATCAGGTAA
52129123 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
52129142 CAGAATCA
1 CAGAATCA
52129150 AAAATCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 7 0.23
13 2 0.07
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 2 0.07
19 15 0.50
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:52129360 original size:27 final size:28
Alignment explanation
Indices: 52129330--52129383 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
52129320 GATACAAATA
52129330 TTGTGGCAGAGCCACCAG-AACAGATAT
1 TTGTGGCAGAGCCACCAGAAACAGATAT
*
52129357 TTGTGGCATAGCCACCAGAAACAGATA
1 TTGTGGCAGAGCCACCAGAAACAGATA
52129384 ATGTAGCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
TTGTGGCAGAGCCACCAGAAACAGATAT
Found at i:52129396 original size:27 final size:27
Alignment explanation
Indices: 52129339--52129398 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
52129329 ATTGTGGCAG
* * *
52129339 AGCCACCAGAACAGATATTTGTGGCAT
1 AGCCACCAGAACAGATATATGTAGCAA
52129366 AGCCACCAGAAACAGATA-ATGTAGCAA
1 AGCCACCAG-AACAGATATATGTAGCAA
52129393 AGCCAC
1 AGCCAC
52129399 TTAACAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (27 bp):
AGCCACCAGAACAGATATATGTAGCAA
Found at i:52129585 original size:22 final size:21
Alignment explanation
Indices: 52129557--52129621 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
52129547 GCAAATACGT
52129557 TTGGCACGCAGCCATAATCAGG
1 TTGGCACG-AGCCATAATCAGG
*
52129579 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCAC-GAGCCATAAT-CAGG
* *
52129601 TTGACACAAAGCCATAATCAG
1 TTGGCAC-GAGCCATAATCAG
52129622 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.06
22 31 0.86
23 3 0.08
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACGAGCCATAATCAGG
Found at i:52130104 original size:27 final size:27
Alignment explanation
Indices: 52130047--52130287 Score: 344
Period size: 27 Copynumber: 9.0 Consensus size: 27
52130037 GGGGCAAAAT
* * * *
52130047 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52130073 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52130100 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52130127 GGTAATTCTACCCTACA-GGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52130153 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52130180 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52130207 GGTAATTCTACCCTACAGGGG-ATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52130233 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
52130260 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52130287 G
1 G
52130288 ATATTTTTCA
Statistics
Matches: 190, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
26 62 0.33
27 128 0.67
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:52130105 original size:53 final size:54
Alignment explanation
Indices: 52130048--52130287 Score: 326
Period size: 53 Copynumber: 4.5 Consensus size: 54
52130038 GGGCAAAATG
* * * * * *
52130048 GTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
52130101 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
52130153 GATAATTCTACCCTATAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
52130208 GTAATTCTACCCTACAGGGG-ATTTCAGTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
52130261 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
52130288 ATATTTTTCA
Statistics
Matches: 167, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
52 1 0.01
53 111 0.66
54 54 0.32
55 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:52130173 original size:80 final size:79
Alignment explanation
Indices: 52130047--52130287 Score: 340
Period size: 80 Copynumber: 3.0 Consensus size: 79
52130037 GGGGCAAAAT
* * * * * **
52130047 GGTAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
1 GGTAATTCTACCCTACAGGGTAT-TCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
52130112 CTACAGGGGTATTTC
65 CTACAGGGGTATTTC
* *
52130127 GGTAATTCTACCCTACAGGGTATTGCGATAATTCTACCCTATAGGGGTATTTCGGTAATTTTACC
1 GGTAATTCTACCCTACAGGGTATT-CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
52130192 CTACAGGGGTATTTC
65 CTACAGGGGTATTTC
* *
52130207 GGTAATTCTACCCTACAGGGGATTTC-AGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGTA-TTCGA-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
52130271 CCTACAGGGGTATTTC
64 CCTACAGGGGTATTTC
52130287 G
1 G
52130288 ATATTTTTCA
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.01
80 141 0.97
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (79 bp):
GGTAATTCTACCCTACAGGGTATTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
TACAGGGGTATTTC
Found at i:52130328 original size:27 final size:26
Alignment explanation
Indices: 52130296--52130455 Score: 131
Period size: 27 Copynumber: 5.9 Consensus size: 26
52130286 CGATATTTTT
* *
52130296 CAAATCGAGAGTATTTTGATAATTTCA
1 CAAATC-AGGGTATTTTGGTAATTTCA
* *
52130323 CAAATCAGGGGTGTTTTGGTAATTTTA
1 CAAATCA-GGGTATTTTGGTAATTTCA
* *
52130350 CAAGTCAAGGGTATTTTGGTAATTTTA
1 CAAATC-AGGGTATTTTGGTAATTTCA
* * * *
52130377 GAAACCAGGGGTATTTTAGTAATTTTA
1 CAAATCA-GGGTATTTTGGTAATTTCA
* *
52130404 CAAACCAGGGGTATTTTGGTAATTTTA
1 CAAATCA-GGGTATTTTGGTAATTTCA
***
52130431 TTGATCGAGGGTATTTTGGTAATTT
1 CAAATC-AGGGTATTTTGGTAATTT
52130456 TGTAAACTAA
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 109 0.96
28 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (26 bp):
CAAATCAGGGTATTTTGGTAATTTCA
Found at i:52130407 original size:81 final size:81
Alignment explanation
Indices: 52130306--52130473 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 81
52130296 CAAATCGAGA
* *
52130306 GTATTTTGATAATTTCACAAATCAGGGGTGTTTTGGTAATTTTACAAG-TCAAGGGTATTTTGGT
1 GTATTTTGATAATTTCACAAACCAGGGGTATTTTGGTAATTTTA-AAGATCAAGGGTATTTTGGT
*
52130370 AATTTTAG-AAACCAGGG
65 AATTTT-GTAAACCAAGG
* ** *
52130387 GTATTTT-AGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGT
1 GTATTTTGA-TAATTTCACAAACCAGGGGTATTTTGGTAATTTTAAAGATCAAGGGTATTTTGGT
*
52130451 AATTTTGTAAACTAAGG
65 AATTTTGTAAACCAAGG
52130468 GTATTT
1 GTATTT
52130474 CAATAATTCT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 3 0.04
81 73 0.96
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.42
Consensus pattern (81 bp):
GTATTTTGATAATTTCACAAACCAGGGGTATTTTGGTAATTTTAAAGATCAAGGGTATTTTGGTA
ATTTTGTAAACCAAGG
Found at i:52130443 original size:54 final size:54
Alignment explanation
Indices: 52130275--52130473 Score: 179
Period size: 54 Copynumber: 3.7 Consensus size: 54
52130265 TTCTACCCTA
* * * * * * * * * *
52130275 CAGGGGTATTTCGAT-ATTTTTCAAATCGAGAGTATTTTGATAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTAGAAAC
* **
52130328 CAGGGGTGTTTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTAGAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTAGAAAC
* * *
52130382 CAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTG-ATC
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTA--GAAAC
* ** *
52130437 GA-GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
52130474 CAATAATTCT
Statistics
Matches: 120, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
53 12 0.10
54 104 0.87
55 3 0.03
56 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTAGAAAC
Found at i:52130468 original size:27 final size:27
Alignment explanation
Indices: 52130331--52130473 Score: 128
Period size: 27 Copynumber: 5.3 Consensus size: 27
52130321 CACAAATCAG
* * *
52130331 GGGTGTTTTGGTAATTTTA-CAAGTCAA
1 GGGTATTTTGGTAATTTTATAAACT-AA
* * *
52130358 GGGTATTTTGGTAATTTTAGAAACCAG
1 GGGTATTTTGGTAATTTTATAAACTAA
* * * *
52130385 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACTAA
** *
52130412 GGGTATTTTGGTAATTTTATTGA-TCGA
1 GGGTATTTTGGTAATTTTATAAACT-AA
*
52130439 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTATAAACTAA
52130466 GGGTATTT
1 GGGTATTT
52130474 CAATAATTCT
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 92 0.97
28 3 0.03
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACTAA
Found at i:52130507 original size:27 final size:27
Alignment explanation
Indices: 52130477--52130701 Score: 306
Period size: 27 Copynumber: 8.3 Consensus size: 27
52130467 GGTATTTCAA
* *
52130477 TAATTCTGTAAATCGAGGATAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
52130504 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
52130531 TAATTCTATAAATCAAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
52130558 TAATTCTATAAATTGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
52130585 TAATTCTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
52130612 TAATTCTATAAATTGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
52130639 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
* *
52130666 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
52130693 TAATTCTGT
1 TAATTCTGT
52130702 CTTATTTCAG
Statistics
Matches: 173, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 173 1.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:52130535 original size:81 final size:80
Alignment explanation
Indices: 52130449--52130699 Score: 299
Period size: 81 Copynumber: 3.1 Consensus size: 80
52130439 GGGTATTTTG
* * ** * * * *
52130449 GTAATTTTGTAAACTAAGGGTATTTCAATAATTCTGTAAATCGAGGATAAAATGGTAATTCTGTA
1 GTAATTCTATAAA-TAAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
52130514 AATCGAGGGTAAAAC-
65 AATCGAGGGTAAAACA
* * *
52130529 GATAATTCTATAAATCAAGGGTAAAAT-GGTAATTCTATAAATTGAGGGTAAAACGATAATTCTG
1 G-TAATTCTATAAAT-AAGGGT-AAATCAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTG
52130593 TAAATCGAGGGTAAAACA
63 TAAATCGAGGGTAAAACA
* * *
52130611 GTAATTCTATAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTCTATAAA-TAAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTA
**
52130676 AATCGAGGGTAAAATG
65 AATCGAGGGTAAAACA
52130692 GTAATTCT
1 GTAATTCT
52130700 GTCTTATTTC
Statistics
Matches: 146, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
80 5 0.03
81 137 0.94
82 4 0.03
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (80 bp):
GTAATTCTATAAATAAGGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAA
ATCGAGGGTAAAACA
Found at i:52130781 original size:27 final size:27
Alignment explanation
Indices: 52130714--52130798 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
52130704 TATTTCAGTG
* *
52130714 ATTTTACAAATCGAGGATATTTGGGTA
1 ATTTTACAAATCGGGGGTATTTGGGTA
*
52130741 ATTTTATAAATCGGGGGTACTTT-GGTA
1 ATTTTACAAATCGGGGGTA-TTTGGGTA
* **
52130768 ATTTTACAAGTCGGGGGTATTTCAGTA
1 ATTTTACAAATCGGGGGTATTTGGGTA
52130795 ATTT
1 ATTT
52130799 GGTAAACTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.06
27 44 0.88
28 3 0.06
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (27 bp):
ATTTTACAAATCGGGGGTATTTGGGTA
Found at i:52133361 original size:38 final size:38
Alignment explanation
Indices: 52133311--52133406 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 38
52133301 CCAACTCCGT
* * * *
52133311 CCAACCCAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCATATAGGGATAAAATCAACCCAC
* *
52133349 CCATCCCTACACACCAAATATAGGGATAAAATCAACCCAT
1 CCAACCCTACACACC--ATATAGGGATAAAATCAACCCAC
52133389 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
52133407 GAGTACCATA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
38 16 0.33
40 33 0.67
ACGTcount: A:0.40, C:0.38, G:0.09, T:0.14
Consensus pattern (38 bp):
CCAACCCTACACACCATATAGGGATAAAATCAACCCAC
Found at i:52136512 original size:27 final size:26
Alignment explanation
Indices: 52136479--52136656 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
52136469 TAAATTGTAC
52136479 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
52136506 TGTACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
52136532 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
52136560 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* * *
52136588 AGCACTAAGTGTGCAATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
52136615 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
52136642 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52136657 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.80
28 24 0.19
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:52136597 original size:82 final size:81
Alignment explanation
Indices: 52136480--52136635 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
52136470 AAATTGTACA
* * * *
52136480 GCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAA-ATGAATATG-ATGCACTAAGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGC-AATATGAATACGTA-GCACTAAGT
52136543 GTGCGAATTGACCATGCG
64 GTGCGAATTGACCATGCG
* *
52136561 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCAATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCAATATGAATACGTAGCACTAAGTG
*
52136626 TGCGAGTTGA
65 TGCGAATTGA
52136636 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 19 0.29
82 45 0.69
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCAATATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52136647 original size:82 final size:81
Alignment explanation
Indices: 52136476--52136656 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
52136466 GATTAAATTG
* * * *
52136476 TACAGCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
52136541 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
52136557 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGC-AATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAA-ATGAATACGAT-GCAC
* **
52136620 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
52136639 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
52136657 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 22 0.27
82 60 0.73
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:52136667 original size:27 final size:27
Alignment explanation
Indices: 52136561--52136667 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
52136551 TGACCATGCG
* * *
52136561 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
* ** * * **
52136589 GCACTAAGTGTGCAATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
52136616 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
52136643 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
52136668 CATTCGTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
27 51 0.78
28 14 0.22
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:52140519 original size:156 final size:157
Alignment explanation
Indices: 52140306--52140615 Score: 595
Period size: 156 Copynumber: 2.0 Consensus size: 157
52140296 TATCACACAC
52140306 ACATAAATAACATAACATATGATAAAAAACAAAAACTTAAAAATGACACAAACTTATGCTTAAAA
1 ACATAAATAACATAACATATGATAAAAAACAAAAACTTAAAAATGACACAAACTTATGCTTAAAA
*
52140371 ATAGTTAGCATATGAAAACACATGATAAAAATCTATGGGATAACTTAAATTCAACTTATTAAATT
66 ATAGTTAGCATATGAAAACACATGATAAAAATCTATGGGATAACTTAAATGCAACTTATTAAATT
52140436 GAACATAAAACTTAATACAAAGTCATA
131 GAACATAAAACTTAATACAAAGTCATA
*
52140463 ACATAAATAACATAACATATGAT-AAAAACAAAAACTTAAAAATGACACAAACTTATGCTTAAAC
1 ACATAAATAACATAACATATGATAAAAAACAAAAACTTAAAAATGACACAAACTTATGCTTAAAA
52140527 ATAGTTAGCATATGAAAACACATGATAAAAATCTATGGGATAACTTAAATGCAACTTATTAAATT
66 ATAGTTAGCATATGAAAACACATGATAAAAATCTATGGGATAACTTAAATGCAACTTATTAAATT
52140592 GAACATAAAACTTAATACAAAGTC
131 GAACATAAAACTTAATACAAAGTC
52140616 TTGAAATCAC
Statistics
Matches: 151, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
156 128 0.85
157 23 0.15
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (157 bp):
ACATAAATAACATAACATATGATAAAAAACAAAAACTTAAAAATGACACAAACTTATGCTTAAAA
ATAGTTAGCATATGAAAACACATGATAAAAATCTATGGGATAACTTAAATGCAACTTATTAAATT
GAACATAAAACTTAATACAAAGTCATA
Found at i:52148348 original size:31 final size:31
Alignment explanation
Indices: 52148310--52148371 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
52148300 TAATAGGTTT
52148310 AATGTTAATAAAACGAGGTTTCAAAATTGGC
1 AATGTTAATAAAACGAGGTTTCAAAATTGGC
*
52148341 AATGTTAATAAAATGAGGTTTCAAAATTGGC
1 AATGTTAATAAAACGAGGTTTCAAAATTGGC
52148372 TAAGTCTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (31 bp):
AATGTTAATAAAACGAGGTTTCAAAATTGGC
Found at i:52152650 original size:15 final size:15
Alignment explanation
Indices: 52152634--52152668 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
52152624 ATCAAACTTT
52152634 TTTTTC-CATT-TTC
1 TTTTTCTCATTCTTC
52152647 TTTTTCTCATTCTTC
1 TTTTTCTCATTCTTC
52152662 TTTTTCT
1 TTTTTCT
52152669 TTTCTCATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 4 0.20
15 10 0.50
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTCTCATTCTTC
Found at i:52152671 original size:20 final size:20
Alignment explanation
Indices: 52152642--52152691 Score: 82
Period size: 20 Copynumber: 2.4 Consensus size: 20
52152632 TTTTTTTCCA
52152642 TTTTCTTTTTCTCATTCTTCT
1 TTTTC-TTTTCTCATTCTTCT
52152663 TTTTCTTTTCTCATTCTTCT
1 TTTTCTTTTCTCATTCTTCT
52152683 TTTCTCTTT
1 TTT-TCTTT
52152692 CATTTGCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTTTTCTCATTCTTCT
Found at i:52152719 original size:45 final size:41
Alignment explanation
Indices: 52152664--52152779 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 41
52152654 CATTCTTCTT
* *
52152664 TTTC-TTTTCTCATTCTTCTTTTCTCTTTCATTTGCTATTTTTG
1 TTTCTTTTTCTCATTCTTCTTTTCTTTTTCATTT--TA-TTTTC
*
52152707 TGTTCTTTTTCTCATT-TCTCATTTCTTTTTCATTTTATTTTC
1 T-TTCTTTTTCTCATTCT-TCTTTTCTTTTTCATTTTATTTTC
**
52152749 TTTCTTTTTCAAATTCATTCTTTTCTTTTTC
1 TTTCTTTTTCTCATTC-TTCTTTTCTTTTTC
52152780 TTTCAATTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
41 12 0.19
42 17 0.27
43 4 0.06
44 4 0.06
45 25 0.40
ACGTcount: A:0.09, C:0.20, G:0.03, T:0.68
Consensus pattern (41 bp):
TTTCTTTTTCTCATTCTTCTTTTCTTTTTCATTTTATTTTC
Found at i:52154443 original size:27 final size:27
Alignment explanation
Indices: 52154421--52154654 Score: 319
Period size: 27 Copynumber: 8.7 Consensus size: 27
52154411 AAAATTAATG
* * * *
52154421 TTTTACCATTGATTTAAAGAATTACCG
1 TTTTACCCTCGATTTACAGAATTACCA
*
52154448 TTTTACCCTCGATTTACAGAATCACCA
1 TTTTACCCTCGATTTACAGAATTACCA
* *
52154475 TTTTACCAT-GATTTACAGATTTACCA
1 TTTTACCCTCGATTTACAGAATTACCA
*
52154501 TTTTACCCTCGATTTACAAAATTACCA
1 TTTTACCCTCGATTTACAGAATTACCA
* * *
52154528 TTTTACCCTCGATTTATAGAATTAACG
1 TTTTACCCTCGATTTACAGAATTACCA
*
52154555 TTTTACCCTCGATTTATAGAATTACCA
1 TTTTACCCTCGATTTACAGAATTACCA
*
52154582 TTTTACCCTCGATTTACAGAATTACCG
1 TTTTACCCTCGATTTACAGAATTACCA
*
52154609 TTTTACCCTCGATTTACAGAATCACCA
1 TTTTACCCTCGATTTACAGAATTACCA
*
52154636 TTTTACCAT-GATTTACAGA
1 TTTTACCCTCGATTTACAGA
52154655 TTCGGAGCGT
Statistics
Matches: 184, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
26 33 0.18
27 151 0.82
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACCA
Found at i:52155042 original size:27 final size:26
Alignment explanation
Indices: 52154981--52155042 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
52154971 CTCAATTTGT
** *
52154981 AAAATTAATGTTTTACCATTGATTTA
1 AAAATTACCGTTTTACCATCGATTTA
*
52155007 AAGAATTACCGTTTTACCCTCGATTTA
1 AA-AATTACCGTTTTACCATCGATTTA
52155034 CAAAATTAC
1 -AAAATTAC
52155043 TAAAATACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (26 bp):
AAAATTACCGTTTTACCATCGATTTA
Found at i:52155139 original size:26 final size:26
Alignment explanation
Indices: 52155035--52155243 Score: 172
Period size: 27 Copynumber: 7.8 Consensus size: 26
52155025 CTCGATTTAC
* * *
52155035 AAAATTACTAAAATACCCTTAGTTTAT
1 AAAATTACCAAAATACCCCT-GTTTGT
**
52155062 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-G-TTTGT
* * *
52155089 AAAATTACCAAAAAATCGCTGGTTTGT
1 AAAATTACCAAAATACCCCT-GTTTGT
* * *
52155116 AAAAGTACTAAAATACCCCTGTTTAT
1 AAAATTACCAAAATACCCCTGTTTGT
*
52155142 AAAATTACCAAAATACCCCTAGCTTGT
1 AAAATTACCAAAATACCCCT-GTTTGT
52155169 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTG-TTTGT
* * *
52155196 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-G-TTTGT
* *
52155223 AAAA-TATCGAAATACCCCTGT
1 AAAATTACCAAAATACCCCTGT
52155244 AGGGTAGAAT
Statistics
Matches: 148, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
25 1 0.01
26 41 0.28
27 102 0.69
28 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTGTTTGT
Found at i:52155177 original size:570 final size:570
Alignment explanation
Indices: 52154086--52155159 Score: 1746
Period size: 570 Copynumber: 1.9 Consensus size: 570
52154076 CTAAGAGTGC
52154086 TCGGAGCATGGATTAACTCCAATCGCCAATCAGGTGTGTATTTCTCACTACTCTAGCTATAGGAT
1 TCGGAGCATGGATTAACTCCAATCGCCAATCAGGTGTGTATTTCTCACTACTCTAGCTATAGGAT
52154151 GGGTACTTCGAGCCGCGATGGGCCGAAAGGGGTCATGTGGGCCCAATGGGCCTACGGGCCCAATT
66 GGGTACTTCGAGCCGCGATGGGCCGAAAGGGGTCATGTGGGCCCAATGGGCCTACGGGCCCAATT
52154216 GGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGTTAGGTGAATCTCATATTTGTGGCTA
131 GGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGTTAGGTGAATCTCATATTTGTGGCTA
52154281 GATTTGGGCTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTAAGCCCA
196 GATTTGGGCTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTAAGCCCA
52154346 TTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTGT
261 TTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTGT
* *
52154411 AAAATTAATGTTTTACCATTGATTTAAAGAATTACCGTTTTACCCTCGATTTACAGAATCACCAT
326 AAAATTAATGTTTTACCATTGATTTAAAGAATTACCGTTTTACCCTCGATTTACAAAATCACCAA
** * * *** * ****
52154476 TTTACCATGATTTACAGATTTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGAT
391 AATACCATGATTTACAAAATTACCAAAATACCCTCGATTCACAAAATTACCAAAAAACCCTCGAT
* * ** * *** *
52154541 TTATAGAATTAACGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTA
456 TTATAAAAGTAACGTAATACCCTCGATTTATAAAATTACCAAAATACCCTAGATTTACAGAATTA
52154606 CCGTTTTACCCTCGATTTACAGAATCACCATTTTACCATGATTTACAGAT
521 CCGTTTTACCCTCGATTTACAGAATCACCATTTTACCATGATTTACAGAT
* *
52154656 TCGGAGCGTGGATTAACTCCAGTCGCCAATCAGGTGTGTATTTCTCACTACTCTAGCTATAGGAT
1 TCGGAGCATGGATTAACTCCAATCGCCAATCAGGTGTGTATTTCTCACTACTCTAGCTATAGGAT
52154721 GGGTACTTCGAGCCGCGATGGGCCGAAAGGGGTCATGTGGGCCCAATGGGCCTACGGGCCCAATT
66 GGGTACTTCGAGCCGCGATGGGCCGAAAGGGGTCATGTGGGCCCAATGGGCCTACGGGCCCAATT
52154786 GGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGTTAGGTGAATCTCATATTTGTGGCTA
131 GGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGTTAGGTGAATCTCATATTTGTGGCTA
52154851 GATTTGGGCTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTAAGCCCA
196 GATTTGGGCTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTAAGCCCA
52154916 TTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTGT
261 TTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTGT
* *
52154981 AAAATTAATGTTTTACCATTGATTTAAAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAA
326 AAAATTAATGTTTTACCATTGATTTAAAGAATTACCGTTTTACCCTCGATTTACAAAATCACCAA
* * * * *
52155046 AATACCCTTAGTTTATAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAAAATCGCT-
391 AATACCATGA-TTTACAAAATTACCAAAATACCCTCGATTCA-CAAAATTACCAAAAAA-CCCTC
* *
52155109 GGTTTGTAAAAGT-AC-TAAAATACCC-CTG-TTTATAAAATTACCAAAATACCC
453 GATTTATAAAAGTAACGT--AATACCCTC-GATTTATAAAATTACCAAAATACCC
52155160 CTAGCTTGTA
Statistics
Matches: 465, Mismatches: 33, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
569 1 0.00
570 414 0.89
571 47 0.10
572 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (570 bp):
TCGGAGCATGGATTAACTCCAATCGCCAATCAGGTGTGTATTTCTCACTACTCTAGCTATAGGAT
GGGTACTTCGAGCCGCGATGGGCCGAAAGGGGTCATGTGGGCCCAATGGGCCTACGGGCCCAATT
GGATAAGTTGTTTGATTGTGTAGTAAATATTGGACTAGGTTAGGTGAATCTCATATTTGTGGCTA
GATTTGGGCTAAAAGGGCCACACGAGCGTGTGGGCCCATTTGGGCCGAGAATAGGCTTAAGCCCA
TTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAATTACTAAAATGCCCTCAATTTGT
AAAATTAATGTTTTACCATTGATTTAAAGAATTACCGTTTTACCCTCGATTTACAAAATCACCAA
AATACCATGATTTACAAAATTACCAAAATACCCTCGATTCACAAAATTACCAAAAAACCCTCGAT
TTATAAAAGTAACGTAATACCCTCGATTTATAAAATTACCAAAATACCCTAGATTTACAGAATTA
CCGTTTTACCCTCGATTTACAGAATCACCATTTTACCATGATTTACAGAT
Found at i:52155209 original size:80 final size:81
Alignment explanation
Indices: 52155035--52155211 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 81
52155025 CTCGATTTAC
* *
52155035 AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
* * *
52155100 AAAATCGCTGGTTTGT
66 AAAACCCCTGATTTGT
* * *
52155116 AAAAGTACTAAAATACCCCT-GTTTATAAAATTACCAAAATACCCCTAGCT-TGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATA-CCCTAGATCAGTAAAATTACCA
*
52155179 AAATACCCCTGATTTGT
65 AAAAACCCCTGATTTGT
*
52155196 GAAATTA-TCAAAATAC
1 AAAATTACT-AAAATAC
52155212 TCTCGATTTG
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 58 0.70
81 24 0.29
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
AAAACCCCTGATTTGT
Found at i:52155222 original size:107 final size:106
Alignment explanation
Indices: 52155030--52155243 Score: 254
Period size: 107 Copynumber: 2.0 Consensus size: 106
52155020 TTACCCTCGA
* * *
52155030 TTTACAAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTCGATCAGTAAAATT
1 TTTACAAAATTACCAAAATACCCCTAGCTTATAAAATTACCAAAATACCCTCGATCAGTAAAATT
*
52155095 ACCAAAAAATCGCTGGTTTGTAAAAGTA-CTAAAATACCCCTG
66 ACCAAAAAATCGCTGATTTGTAAAA-TATC-AAAATACCCCTG
* * ** *
52155137 TTTATAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCC-CTGATTTGTGAAAT
1 TTTACAAAATTACCAAAATACCCCTAGCTTATAAAATTACCAAAATACCCTC-GATCAGTAAAAT
* * * *
52155201 TATCAAAATA-CTCTCGATTTGTAAAATATCGAAATACCCCTG
65 TACCAAAAAATCGCT-GATTTGTAAAATATCAAAATACCCCTG
52155243 T
1 T
52155244 AGGGTAGAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
106 18 0.20
107 73 0.80
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (106 bp):
TTTACAAAATTACCAAAATACCCCTAGCTTATAAAATTACCAAAATACCCTCGATCAGTAAAATT
ACCAAAAAATCGCTGATTTGTAAAATATCAAAATACCCCTG
Found at i:52155261 original size:27 final size:27
Alignment explanation
Indices: 52155230--52156130 Score: 911
Period size: 27 Copynumber: 33.0 Consensus size: 27
52155220 TGTAAAATAT
**
52155230 CGAAATACCCCTGTAGGGTAGAATTTT
1 CGAAATACCCCTGTAGGGTAGAATTAA
52155257 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155283 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155311 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155337 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155365 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155391 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155419 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155445 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155473 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155499 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155527 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155553 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155581 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155607 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155635 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155661 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155689 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155715 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155743 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155769 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155797 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155823 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155851 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52155877 CTGAAATAACCCTGTAGGGTAGAATCAC
1 C-GAAATACCCCTGTAGGGTAGAATTAA
52155905 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
*
52155931 CTGAAATAACCCTGTAGGGTAGAATCATTTGTGAAATTA
1 C-GAAATACCCCTGTAGGGTAG-A--A--T-T---A--A
* * ** * *
52155970 TCAAAATA-CTCTCG-ATTTGTA-AAATAT
1 -CGAAATACCCCT-GTA-GGGTAGAATTAA
52155997 CGAAATACCCCTGTAGGGTAGAATT-A
1 CGAAATACCCCTGTAGGGTAGAATTAA
* * *
52156023 CTGAAAAACCCCTGTAGGGAAGAATTAT
1 C-GAAATACCCCTGTAGGGTAGAATTAA
* * *
52156051 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAA
*
52156078 CGAAATA-CCCTAGTAGGGTAGAATTAT
1 CGAAATACCCCT-GTAGGGTAGAATTAA
* * * *
52156105 CGAGATACCCTTGTGGGGTAAAATTA
1 CGAAATACCCCTGTAGGGTAGAATTA
52156131 CCATTTTGCC
Statistics
Matches: 726, Mismatches: 101, Indels: 94
0.79 0.11 0.10
Matches are distributed among these distances:
26 27 0.04
27 660 0.91
28 17 0.02
29 1 0.00
30 1 0.00
32 2 0.00
33 1 0.00
35 1 0.00
37 1 0.00
38 4 0.01
39 10 0.01
40 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAA
Found at i:52155296 original size:54 final size:54
Alignment explanation
Indices: 52155231--52155957 Score: 1418
Period size: 54 Copynumber: 13.5 Consensus size: 54
52155221 GTAAAATATC
* ***
52155231 GAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155285 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155339 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155393 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155447 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155501 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155555 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155609 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155663 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155717 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155771 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155825 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155879 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
52155933 GAAATAACCCTGTAGGGTAGAATCA
1 GAAATAACCCTGTAGGGTAGAATCA
52155958 TTTGTGAAAT
Statistics
Matches: 669, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 669 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (54 bp):
GAAATAACCCTGTAGGGTAGAATCACCGAAATACCCCTGTAGGGTAGAATTACT
Found at i:52156382 original size:22 final size:22
Alignment explanation
Indices: 52156351--52156418 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
52156341 GCTATGCCCG
52156351 GTTTATCGAAAAGGGCTTTGCA
1 GTTTATCGAAAAGGGCTTTGCA
* **
52156373 GTTTACCGAAAATTGCTTTGCCCCA
1 GTTTATCGAAAAGGGCTTTG---CA
*
52156398 GTTTATCAAAAAGGGCTTTGC
1 GTTTATCGAAAAGGGCTTTGC
52156419 CCCAGTTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
22 18 0.50
25 18 0.50
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (22 bp):
GTTTATCGAAAAGGGCTTTGCA
Found at i:52156409 original size:25 final size:25
Alignment explanation
Indices: 52156335--52156425 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
52156325 AGGAAGTGCT
* * * *
52156335 AAAAGGGCTATG-CCCGGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
52156359 AAAAGGGCTTTG---CAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
** *
52156381 AAAATTGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
52156406 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
52156426 ATTAAAACAG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.33
24 11 0.20
25 26 0.47
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Done.