Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 345 of 349
Found at i:113723445 original size:25 final size:25
Alignment explanation
Indices: 113723385--113723502 Score: 91
Period size: 25 Copynumber: 4.8 Consensus size: 25
113723375 CTCACTCTCA
*
113723385 AGCCATATAACAGGAAGCTCATGTG
1 AGCCATATAACAGGAAGCTCATCTG
* * * *
113723410 AGACATGTAACAAGAAGCTTATCTG
1 AGCCATATAACAGGAAGCTCATCTG
* **
113723435 GGCCATATAACAGGAAGCTC-TGAAG
1 AGCCATATAACAGGAAGCTCAT-CTG
*
113723460 AGCCATAT-TCAGGAAGCTCAT-TCG
1 AGCCATATAACAGGAAGCTCATCT-G
* *
113723484 AGCC-TATAATAGGTAGCTC
1 AGCCATATAACAGGAAGCTC
113723503 CGAAGAGCCA
Statistics
Matches: 71, Mismatches: 18, Indels: 9
0.72 0.18 0.09
Matches are distributed among these distances:
23 3 0.04
24 24 0.34
25 44 0.62
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATCTG
Found at i:113724098 original size:21 final size:21
Alignment explanation
Indices: 113724074--113724113 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
113724064 TAAATTTAAC
* *
113724074 TCAATTTAATGCAATTCACAT
1 TCAATTCAATCCAATTCACAT
113724095 TCAATTCAATCCAATTCAC
1 TCAATTCAATCCAATTCAC
113724114 GTCTTAGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TCAATTCAATCCAATTCACAT
Found at i:113729128 original size:35 final size:35
Alignment explanation
Indices: 113729089--113729311 Score: 297
Period size: 35 Copynumber: 6.4 Consensus size: 35
113729079 CACGCTGACA
* *
113729089 CTCATAAGAACTGGTCCAACTG-AATCACGCCAATG
1 CTCATAAGAGCTAGTCCAACTGTAA-CACGCCAATG
* *
113729124 CTCATAAGAGCTAGTCCAACCGTAACATGCCAATG
1 CTCATAAGAGCTAGTCCAACTGTAACACGCCAATG
* * *
113729159 CTCATAAGAGCTAGTCCAACCGTAACATGCCAATT
1 CTCATAAGAGCTAGTCCAACTGTAACACGCCAATG
* ** *
113729194 CTCATAAGATCTAGTCCAA-TCAAATTACGCCAATG
1 CTCATAAGAGCTAGTCCAACTGTAA-CACGCCAATG
*
113729229 CTCATAAGAGCTAGCCCAACTGTAACACGCCAATG
1 CTCATAAGAGCTAGTCCAACTGTAACACGCCAATG
*
113729264 CTCATAAGAGCTAGCCCAACTGTAACACGCCAATG
1 CTCATAAGAGCTAGTCCAACTGTAACACGCCAATG
113729299 CTCATAAGAGCTA
1 CTCATAAGAGCTA
113729312 ATCTAACCGA
Statistics
Matches: 168, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
34 2 0.01
35 161 0.96
36 5 0.03
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.21
Consensus pattern (35 bp):
CTCATAAGAGCTAGTCCAACTGTAACACGCCAATG
Found at i:113729326 original size:35 final size:35
Alignment explanation
Indices: 113729066--113729331 Score: 293
Period size: 35 Copynumber: 7.6 Consensus size: 35
113729056 GTACATCGTC
* ** ** *
113729066 AGTCCAACCATAACACGCTGACACTCATAAGAACT
1 AGTCCAACCGTAACACGCCAATGCTCATAAGAGCT
* *
113729101 GGTCCAACTG-AATCACGCCAATGCTCATAAGAGCT
1 AGTCCAACCGTAA-CACGCCAATGCTCATAAGAGCT
*
113729136 AGTCCAACCGTAACATGCCAATGCTCATAAGAGCT
1 AGTCCAACCGTAACACGCCAATGCTCATAAGAGCT
* * *
113729171 AGTCCAACCGTAACATGCCAATTCTCATAAGATCT
1 AGTCCAACCGTAACACGCCAATGCTCATAAGAGCT
* * *
113729206 AGTCCAATC-AAATTACGCCAATGCTCATAAGAGCT
1 AGTCCAACCGTAA-CACGCCAATGCTCATAAGAGCT
* *
113729241 AGCCCAACTGTAACACGCCAATGCTCATAAGAGCT
1 AGTCCAACCGTAACACGCCAATGCTCATAAGAGCT
* *
113729276 AGCCCAACTGTAACACGCCAATGCTCATAAGAGCT
1 AGTCCAACCGTAACACGCCAATGCTCATAAGAGCT
* * * *
113729311 AATCTAACCGAAACACACCAA
1 AGTCCAACCGTAACACGCCAA
113729332 AAAGAGAGTA
Statistics
Matches: 197, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
34 4 0.02
35 189 0.96
36 4 0.02
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.19
Consensus pattern (35 bp):
AGTCCAACCGTAACACGCCAATGCTCATAAGAGCT
Found at i:113730131 original size:359 final size:359
Alignment explanation
Indices: 113729468--113730169 Score: 1298
Period size: 359 Copynumber: 2.0 Consensus size: 359
113729458 CTATCCCGCG
* * *
113729468 TTCAATCCAATCGGAGCAATCAAATTCAATAGCATCTCTCAAATAATAATTCATTATCAACAATT
1 TTCAATCCAATCGGAGCAATCAAAGTCAATAGCATCTCTCAAATAATAATTCATTACCAAAAATT
113729533 GAATATGTATTTTATATCATGTTATACTATTCAAAAATTCCTATAGATGTTAAATTTTAACCGTA
66 GAATATGTATTTTATATCATGTTATACTATTCAAAAATTCCTATAGATGTTAAATTTTAACCGTA
113729598 CGAACTTACCTGGCTAAATTGCAGAAATATCAAAGTATATGGGGCTTTTTGATAATTTTTCATTC
131 CGAACTTACCTGGCTAAATTGCAGAAATATCAAAGTATATGGGGCTTTTTGATAATTTTTCATTC
*
113729663 TCCTCGATTTTCCACTTGATCTTGATCTAAATTAATAATTCCATTCAATTTATTAATTTAGATAC
196 TCCTCGATTTTCCACTTGATCTTGATATAAATTAATAATTCCATTCAATTTATTAATTTAGATAC
*
113729728 TAAAAAAATTTATTTTATATAATTTAGTCATTTTGACATTTTTACAAAAGTACCCTTAACATTTT
261 TAAAAAAATTTATTTTATATAATTTAGTCATTTTGACATTTTTACAAAAGTACCCCTAACATTTT
113729793 ACTTTTATTCAATTTAGTCGCTGAGCCTAAAATA
326 ACTTTTATTCAATTTAGTCGCTGAGCCTAAAATA
113729827 TTCAATCCAATCGGAGCAATCAAAGTCAATAGCATCTCTCAAATAATAATTCATTACCAAAAATT
1 TTCAATCCAATCGGAGCAATCAAAGTCAATAGCATCTCTCAAATAATAATTCATTACCAAAAATT
*
113729892 GAATATGTATTTTATATCATGTTATACTATTCAAAAATTCCTATAGATGTTAAATTTTAACCGTG
66 GAATATGTATTTTATATCATGTTATACTATTCAAAAATTCCTATAGATGTTAAATTTTAACCGTA
*
113729957 CGAACTTACCTGGCTAAATTGCAGAAATGTCAAAGTATATGGGGCTTTTTGATAATTTTTCATTC
131 CGAACTTACCTGGCTAAATTGCAGAAATATCAAAGTATATGGGGCTTTTTGATAATTTTTCATTC
* *
113730022 TCCTCGATTTTTCACTTGATCTTGATATAAATTAATAATTTCATTCAATTTATTAATTTAGATAC
196 TCCTCGATTTTCCACTTGATCTTGATATAAATTAATAATTCCATTCAATTTATTAATTTAGATAC
*
113730087 TAAAACAATTTATTTTATATAATTTAGTCATTTTTGAC-TTTTTACAAAAGTACCCCTAACATTT
261 TAAAAAAATTTATTTTATATAATTTAGTCA-TTTTGACATTTTTACAAAAGTACCCCTAACATTT
113730151 TACTTTTATTCAATTTAGT
325 TACTTTTATTCAATTTAGT
113730170 ACCCCTAACA
Statistics
Matches: 332, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
359 325 0.98
360 7 0.02
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (359 bp):
TTCAATCCAATCGGAGCAATCAAAGTCAATAGCATCTCTCAAATAATAATTCATTACCAAAAATT
GAATATGTATTTTATATCATGTTATACTATTCAAAAATTCCTATAGATGTTAAATTTTAACCGTA
CGAACTTACCTGGCTAAATTGCAGAAATATCAAAGTATATGGGGCTTTTTGATAATTTTTCATTC
TCCTCGATTTTCCACTTGATCTTGATATAAATTAATAATTCCATTCAATTTATTAATTTAGATAC
TAAAAAAATTTATTTTATATAATTTAGTCATTTTGACATTTTTACAAAAGTACCCCTAACATTTT
ACTTTTATTCAATTTAGTCGCTGAGCCTAAAATA
Found at i:113730150 original size:31 final size:32
Alignment explanation
Indices: 113730115--113730183 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
113730105 ATAATTTAGT
113730115 CATTTTTGACTTTT-TACAA-AAGTACCCCTAA
1 CATTTTT-ACTTTTATACAATAAGTACCCCTAA
* *
113730146 CA-TTTTACTTTTATTCAATTTAGTACCCCTAA
1 CATTTTTACTTTTATACAA-TAAGTACCCCTAA
113730178 CATTTT
1 CATTTT
113730184 ATATAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 6 0.19
30 8 0.25
31 2 0.06
32 13 0.41
33 3 0.09
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (32 bp):
CATTTTTACTTTTATACAATAAGTACCCCTAA
Found at i:113736567 original size:37 final size:37
Alignment explanation
Indices: 113736512--113736587 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
113736502 CATGTATGTT
*
113736512 AGCTTAATTAGTAATTGCATTAACAATCCTCAAATCA
1 AGCTCAATTAGTAATTGCATTAACAATCCTCAAATCA
* *
113736549 AGCTCAATTAGTAATTGCATTAACAGTCCTTAAATCA
1 AGCTCAATTAGTAATTGCATTAACAATCCTCAAATCA
113736586 AG
1 AG
113736588 TTATTAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (37 bp):
AGCTCAATTAGTAATTGCATTAACAATCCTCAAATCA
Found at i:113743328 original size:17 final size:17
Alignment explanation
Indices: 113743301--113743333 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
113743291 TTACTATAGT
113743301 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
113743319 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
113743334 TCATAATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:113743488 original size:49 final size:47
Alignment explanation
Indices: 113743435--113743571 Score: 145
Period size: 50 Copynumber: 2.8 Consensus size: 47
113743425 ATAAATATAA
113743435 ATATTTATATTAAATACAAGATCTAAACAAATAATATAAACAAATATTT
1 ATATTTAT-TTAAA-ACAAGATCTAAACAAATAATATAAACAAATATTT
* * *
113743484 ATATTTATGTAAAACACCAGATCTAAACAAA-ACAAATTAAATAAATATTT
1 ATATTTATTTAAAACA--AGATCTAAACAAATA-ATA-TAAACAAATATTT
*
113743534 ATATTTATTTAAAACATCAGATCTGAA-AAATAAT-TAAA
1 ATATTTATTTAAAACA--AGATCTAAACAAATAATATAAA
113743572 TCGATGCTCA
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
47 7 0.09
48 5 0.07
49 27 0.36
50 37 0.49
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (47 bp):
ATATTTATTTAAAACAAGATCTAAACAAATAATATAAACAAATATTT
Found at i:113743540 original size:50 final size:49
Alignment explanation
Indices: 113743425--113743557 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 49
113743415 ACGAACAAAT
** * * * *
113743425 ATAAATATAAATATTTATATTAAATACAAGATCTAAACAAATAATATAA
1 ATAAATATTTATATTTATATAAAACACCAGATCTAAACAAAAAATATAA
* *
113743474 ACAAATATTTATATTTATGTAAAACACCAGATCTAAACAAAACAA-ATTAA
1 ATAAATATTTATATTTATATAAAACACCAGATCTAAACAAAA-AATA-TAA
* *
113743524 ATAAATATTTATATTTATTTAAAACATCAGATCT
1 ATAAATATTTATATTTATATAAAACACCAGATCT
113743558 GAAAAATAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
49 35 0.49
50 36 0.51
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (49 bp):
ATAAATATTTATATTTATATAAAACACCAGATCTAAACAAAAAATATAA
Found at i:113745469 original size:3 final size:3
Alignment explanation
Indices: 113745461--113745492 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
113745451 TTGTCCATGA
113745461 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
113745493 TGCTTATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:113748339 original size:31 final size:31
Alignment explanation
Indices: 113748270--113748339 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
113748260 TACTTTATAC
***
113748270 TTGAATTTGATAAATATTTTCATATTATGGT
1 TTGAATTTGATAAATATTTTCATATTAAAAT
* * *
113748301 TTAAATTTGGTAATTATTTTCATATTAAAAT
1 TTGAATTTGATAAATATTTTCATATTAAAAT
113748332 TTGAATTT
1 TTGAATTT
113748340 TAGGGGTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (31 bp):
TTGAATTTGATAAATATTTTCATATTAAAAT
Found at i:113749087 original size:21 final size:23
Alignment explanation
Indices: 113749040--113749087 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
113749030 AATACAATAG
* *
113749040 CAAAATGCCAGCAAAACAACCTA
1 CAAAATGCCAACAAAACAACCAA
113749063 -AAAATGCCAAC-AAACAA-CAA
1 CAAAATGCCAACAAAACAACCAA
113749083 CAAAA
1 CAAAA
113749088 CAACATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.09
21 10 0.45
22 10 0.45
ACGTcount: A:0.60, C:0.27, G:0.06, T:0.06
Consensus pattern (23 bp):
CAAAATGCCAACAAAACAACCAA
Found at i:113757445 original size:20 final size:20
Alignment explanation
Indices: 113757417--113757455 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
113757407 AAGGGACCAA
113757417 TTTGCATAATAACAACATTG
1 TTTGCATAATAACAACATTG
*
113757437 TTTGTATAATAACAACATT
1 TTTGCATAATAACAACATT
113757456 AATATTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (20 bp):
TTTGCATAATAACAACATTG
Found at i:113763389 original size:39 final size:37
Alignment explanation
Indices: 113763341--113763416 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
113763331 TCACTGTTAA
* *
113763341 AATTATTAAAACATTTTATATATTTTTATAATTAAATTC
1 AATTATTAAAACATTTT-TAT-TATTTAAAATTAAATTC
* *
113763380 AATTTTTAAAATATTTTTATTATTTAAAATTAAATTC
1 AATTATTAAAACATTTTTATTATTTAAAATTAAATTC
113763417 GAAACATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 15 0.45
38 3 0.09
39 15 0.45
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (37 bp):
AATTATTAAAACATTTTTATTATTTAAAATTAAATTC
Found at i:113765506 original size:20 final size:20
Alignment explanation
Indices: 113765481--113765523 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
113765471 TCATTAAGTT
*
113765481 TGGTTATTTCCAAAATTTTA
1 TGGTTATTTCCAAAATTTGA
113765501 TGGTTATTTCCAAAATTTGA
1 TGGTTATTTCCAAAATTTGA
113765521 TGG
1 TGG
113765524 GACAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (20 bp):
TGGTTATTTCCAAAATTTGA
Found at i:113766783 original size:9 final size:9
Alignment explanation
Indices: 113766769--113766794 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
113766759 AAAATAAATT
113766769 ATTAAAAAA
1 ATTAAAAAA
113766778 ATTAAAAAA
1 ATTAAAAAA
113766787 ATTAAAAA
1 ATTAAAAA
113766795 TTATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:113768438 original size:26 final size:26
Alignment explanation
Indices: 113768402--113768453 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
113768392 GTTAATGGAG
*
113768402 TTAGGGTTTAAAGAATATTGTATATA
1 TTAGGGTTTAAAGAATATTGCATATA
*
113768428 TTAGGGTTTAAAGAGTATTGCATATA
1 TTAGGGTTTAAAGAATATTGCATATA
113768454 AATTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (26 bp):
TTAGGGTTTAAAGAATATTGCATATA
Found at i:113771376 original size:14 final size:14
Alignment explanation
Indices: 113771357--113771389 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
113771347 ATAATCTCGA
113771357 AAATTTTATGACCC
1 AAATTTTATGACCC
113771371 AAATTTTATGACCC
1 AAATTTTATGACCC
113771385 AAATT
1 AAATT
113771390 AATCAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (14 bp):
AAATTTTATGACCC
Found at i:113776258 original size:82 final size:82
Alignment explanation
Indices: 113776067--113776390 Score: 315
Period size: 83 Copynumber: 3.9 Consensus size: 82
113776057 TATATCTCCA
* * * * * *
113776067 AAATAAAAACTTGGTGTGATTCAAGGCCAAAAGGTTTAAACTTTTTTCATACAAACCCCCCAATT
1 AAATCAAAACTTGGTCTTAATCAAGACCAAAA-G-TTAAAC-TTTTTCATACAAACCCCACAATT
113776132 TCCCTAACAAATT-AAATAAC
63 TCCCTAAC-AATTCAAATAAC
* *
113776152 AGA-CAAAAACTTGATCTTAATCAAGACCAAAAGATTAAAC-TTTTCATACAAACCCCA-AATTT
1 AAATC-AAAACTTGGTCTTAATCAAGACCAAAAG-TTAAACTTTTTCATACAAACCCCACAATTT
113776214 CCCTAACAATTCAAATAAC
64 CCCTAACAATTCAAATAAC
* * * * *
113776233 AAATCAGAACTTTGGTCTTAATCAAGGCTAAAAAGCTTACA-TTTTTCATTCAAA-CCCACAATT
1 AAATCAAAAC-TTGGTCTTAATCAAGAC-CAAAAG-TTAAACTTTTTCATACAAACCCCACAATT
*
113776296 TCCATAACAATTCAAATAA-
63 TCCCTAACAATTCAAATAAC
* * *
113776315 ACAATCACAACTTGGTTTTATTCAA-AGCC-AAAGTTCAAACTTTTTTCATACAAACCCCACAAT
1 A-AATCAAAACTTGGTCTTAATCAAGA-CCAAAAGTT-AAAC-TTTTTCATACAAACCCCACAAT
113776378 TTCCCTAACAATT
62 TTCCCTAACAATT
113776391 AAGACCAAAA
Statistics
Matches: 200, Mismatches: 26, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
79 2 0.01
80 10 0.05
81 25 0.12
82 62 0.31
83 70 0.35
84 7 0.04
85 24 0.12
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.29
Consensus pattern (82 bp):
AAATCAAAACTTGGTCTTAATCAAGACCAAAAGTTAAACTTTTTCATACAAACCCCACAATTTCC
CTAACAATTCAAATAAC
Found at i:113776532 original size:84 final size:79
Alignment explanation
Indices: 113776386--113776688 Score: 296
Period size: 84 Copynumber: 3.8 Consensus size: 79
113776376 ATTTCCCTAA
* * *
113776386 CAATTAAGACCAAAAGGTTAAACATTTCATACAAACCCCCCAATTTCCCTAACAATTCAAAT-AA
1 CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAA--CCCCAATTTCCCTAACAATTCAAATAAA
113776450 CAAATCAGAACTTGGTCT
64 C-AATCAGAACTTGGT-T
* * *
113776468 CAATCAAGGCCAAAAGGTTTAAACTTTTTTCATACAAACCCTCAATTTCCTTCACAATCCAAATA
1 CAATCAAGGCCAAAAGG-TTAAAC--TTTTCATACAAACCC-CAATTTCCCTAACAATTCAAATA
*
113776533 AACAATCA-AATTTTGGTTT
62 AACAATCAGAA-CTTGG-TT
* * * * * * *
113776552 CAATCAAAGCC-AAAGTTTGAACTTTTAATAC-AACCCACAATTTCCTTCACGATTCAAATAAAC
1 CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAACCC-CAATTTCCCTAACAATTCAAATAAAC
* *
113776615 AATCAGGACTTTGTT
65 AATCAGAACTTGGTT
113776630 ---TCAAGGCCAAAAGGTTAAACTTTTTCATACAAACCCCTAATTTCCCTAACAATTCAAAT
1 CAATCAAGGCCAAAAGGTTAAAC-TTTTCATACAAACCCC-AATTTCCCTAACAATTCAAAT
113776689 GAACCCTTTT
Statistics
Matches: 185, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
75 7 0.04
76 9 0.05
77 9 0.05
78 25 0.14
79 37 0.20
80 9 0.05
82 20 0.11
83 15 0.08
84 39 0.21
85 15 0.08
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.29
Consensus pattern (79 bp):
CAATCAAGGCCAAAAGGTTAAACTTTTCATACAAACCCCAATTTCCCTAACAATTCAAATAAACA
ATCAGAACTTGGTT
Found at i:113776551 original size:219 final size:213
Alignment explanation
Indices: 113776174--113776596 Score: 589
Period size: 219 Copynumber: 2.0 Consensus size: 213
113776164 GATCTTAATC
*
113776174 AAGACCAAAAGATTAAACTTTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCA
1 AAGACCAAAAGATTAAACATTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCA
* * *
113776239 GAACTTTGGTCTTAATCAAGGCTAAAAAGCTTACATTTTTCATTCAAACCCACAATTTCCATAAC
66 GAACTTTGGTCTCAATCAAGGCCAAAAAGCTTACATTTTTCATACAAACCCACAATTTCCATAAC
* * * *
113776304 AATTCAAATAAACAATCACAACTTGGTTTTATTCAAAGCCAAAGTTCAAACTTTTTTCATACAAA
131 AATCCAAATAAACAATCACAACTTGGTTTCAATCAAAGCCAAAGTTCAAAC--TTTTAATAC-AA
113776369 CCCCACAATTTCCCTAACAATT
193 -CCCACAATTTCCCTAACAATT
* *
113776391 AAGACCAAAAGGTTAAACATTTCATACAAACCCCCCAATTTCCCTAACAATTCAAATAACAAATC
1 AAGACCAAAAGATTAAACATTTCATACAAA-CCCCAAATTTCCCTAACAATTCAAATAACAAATC
* * * * *
113776456 AGAAC-TTGGTCTCAATCAAGGCCAAAAGGTTTAAACTTTTTTCATACAAACCCTCAATTTCCTT
65 AGAACTTTGGTCTCAATCAAGGCCAAAAAGCTT--ACATTTTTCATACAAACCCACAATTTCCAT
* * **
113776520 CACAATCCAAATAAACAATCA-AATTTTGGTTTCAATCAAAGCCAAAGTTTGAACTTTTAATACA
128 AACAATCCAAATAAACAATCACAA-CTTGGTTTCAATCAAAGCCAAAGTTCAAACTTTTAATACA
113776584 ACCCACAATTTCC
192 ACCCACAATTTCC
113776597 TTCACGATTC
Statistics
Matches: 183, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
215 12 0.07
216 2 0.01
217 59 0.32
218 40 0.22
219 70 0.38
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (213 bp):
AAGACCAAAAGATTAAACATTTCATACAAACCCCAAATTTCCCTAACAATTCAAATAACAAATCA
GAACTTTGGTCTCAATCAAGGCCAAAAAGCTTACATTTTTCATACAAACCCACAATTTCCATAAC
AATCCAAATAAACAATCACAACTTGGTTTCAATCAAAGCCAAAGTTCAAACTTTTAATACAACCC
ACAATTTCCCTAACAATT
Found at i:113778365 original size:78 final size:78
Alignment explanation
Indices: 113778272--113778424 Score: 288
Period size: 78 Copynumber: 2.0 Consensus size: 78
113778262 ATTTATGTCT
*
113778272 TTTTAATATACATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAGATTT
1 TTTTAATATACATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAAATTT
113778337 TGACTACTTAATA
66 TGACTACTTAATA
*
113778350 TTTTAATATATATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAAATTT
1 TTTTAATATACATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAAATTT
113778415 TGACTACTTA
66 TGACTACTTA
113778425 TTTATACAAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (78 bp):
TTTTAATATACATATGGTAATACGAATTATGAAATTTGAACTCACGACATCATATTTTTAAATTT
TGACTACTTAATA
Found at i:113784077 original size:4 final size:4
Alignment explanation
Indices: 113784062--113784094 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
113784052 CTGGTATGCA
*
113784062 TATG TGTG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
113784095 TTTTTAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:113786261 original size:2 final size:2
Alignment explanation
Indices: 113786254--113786302 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
113786244 AACTAGCTTT
113786254 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113786295 TA TA TA TA
1 TA TA TA TA
113786303 ATTGAAAAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113787846 original size:7 final size:7
Alignment explanation
Indices: 113787836--113787862 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
113787826 CCTTTTTCCC
113787836 TTTTTAT
1 TTTTTAT
113787843 TTTTTAT
1 TTTTTAT
113787850 TTTTTAT
1 TTTTTAT
113787857 TTTTTA
1 TTTTTA
113787863 CATTTTGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:113795286 original size:30 final size:28
Alignment explanation
Indices: 113795213--113795292 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 28
113795203 ACAATTGAAC
*
113795213 ATAAATTTCGAAAT-CTAAAAAATATAAA
1 ATAAATTTC-AAATAATAAAAAATATAAA
*
113795241 ACTAAAATTT-TAATAATAAAAAATATATAGA
1 A-T-AAATTTCAAATAATAAAAAATATA-A-A
*
113795272 ATAAATTTCAAATAATGAAAA
1 ATAAATTTCAAATAATAAAAA
113795293 TCACGTAGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
28 4 0.10
29 18 0.43
30 18 0.43
31 2 0.05
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (28 bp):
ATAAATTTCAAATAATAAAAAATATAAA
Found at i:113800283 original size:33 final size:33
Alignment explanation
Indices: 113800246--113800310 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
113800236 AAACTATTCA
* *
113800246 TAAAAATAT-TTAAAACTCAAATTAATTTAAAAT
1 TAAAAATATCTTAAAAC-AAAATTAACTTAAAAT
* *
113800279 TAAAATTATCTTAATACAAAATTAACTTAAAA
1 TAAAAATATCTTAAAACAAAATTAACTTAAAA
113800311 ATATTCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (33 bp):
TAAAAATATCTTAAAACAAAATTAACTTAAAAT
Found at i:113800284 original size:17 final size:17
Alignment explanation
Indices: 113800253--113800310 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
113800243 TCATAAAAAT
*
113800253 ATTTAAAACTCAAATTA
1 ATTTAAAACTAAAATTA
*
113800270 ATTTAAAATTAAAATT-
1 ATTTAAAACTAAAATTA
*
113800286 ATCTTAATAC-AAAATTA
1 AT-TTAAAACTAAAATTA
*
113800303 ACTTAAAA
1 ATTTAAAA
113800311 ATATTCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAAACTAAAATTA
Found at i:113817414 original size:21 final size:20
Alignment explanation
Indices: 113817341--113817415 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
113817331 AAATCTAAAT
* *
113817341 TAAAATACTAAAATTCAAGA
1 TAAAATACTGAAATTCAGGA
*
113817361 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
113817381 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
113817401 TAACAATACTGAAAT
1 TAA-AATACTGAAAT
113817416 GGCATAAAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 40 0.80
21 10 0.20
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:113819275 original size:3 final size:3
Alignment explanation
Indices: 113819267--113819308 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
113819257 TATATATCAA
**
113819267 TAT TAT TAT TAT CGT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
113819309 CATCGTAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:113819671 original size:21 final size:21
Alignment explanation
Indices: 113819638--113819693 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
113819628 TTTCTTATGC
*
113819638 TATTATA-TGTATATTTCTAA
1 TATTATATTGTATATTGCTAA
113819658 TATTATATTGTATATTGCTAA
1 TATTATATTGTATATTGCTAA
*
113819679 TACTATTATT-TATAT
1 TATTA-TATTGTATAT
113819694 CTATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 7 0.22
21 21 0.66
22 4 0.12
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
TATTATATTGTATATTGCTAA
Found at i:113819794 original size:11 final size:11
Alignment explanation
Indices: 113819780--113819806 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
113819770 GTATGTATTG
113819780 TATATGTTCTA
1 TATATGTTCTA
113819791 TATATGTTCTA
1 TATATGTTCTA
113819802 TATAT
1 TATAT
113819807 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:113819880 original size:24 final size:25
Alignment explanation
Indices: 113819853--113819909 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
113819843 TTCCAAGTAC
* *
113819853 ATATTTTT-ATACCATCTTATGTAT
1 ATATTTTTAATACCATATTATATAT
*
113819877 ATATTTTTAAATACTATATTATATAT
1 ATATTTTT-AATACCATATTATATAT
113819903 ATATTTT
1 ATATTTT
113819910 ATTAGTACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.29
26 20 0.71
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (25 bp):
ATATTTTTAATACCATATTATATAT
Found at i:113827133 original size:23 final size:21
Alignment explanation
Indices: 113827103--113827145 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
113827093 CTTGTACATA
113827103 CTTTTTTTTACATCATTTTAGTC
1 CTTTTTTTT--ATCATTTTAGTC
113827126 CTTTTTTTTATCATTTTAGT
1 CTTTTTTTTATCATTTTAGT
113827146 TTTGAATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.65
Consensus pattern (21 bp):
CTTTTTTTTATCATTTTAGTC
Found at i:113831021 original size:8 final size:8
Alignment explanation
Indices: 113830999--113831027 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
113830989 TCTCTCCTCG
113830999 TATTTTAT
1 TATTTTAT
113831007 T-TTTTAT
1 TATTTTAT
113831014 TATTTTAT
1 TATTTTAT
113831022 TATTTT
1 TATTTT
113831028 TTTTCCAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TATTTTAT
Found at i:113831335 original size:19 final size:19
Alignment explanation
Indices: 113831313--113831351 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
113831303 TGTTACGAGG
*
113831313 TTTTTGTGTTG-GTTTTGT
1 TTTTTGGGTTGAGTTTTGT
113831331 TTTTTGGGTTGAGTTTTGT
1 TTTTTGGGTTGAGTTTTGT
113831350 TT
1 TT
113831352 AACTGATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (19 bp):
TTTTTGGGTTGAGTTTTGT
Found at i:113831600 original size:6 final size:6
Alignment explanation
Indices: 113831589--113831617 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
113831579 GTTAATGAAC
113831589 AAATAT AAATAT AAATAT AAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATA
113831618 ATTATGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:113835356 original size:21 final size:21
Alignment explanation
Indices: 113835330--113835370 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
113835320 CAGACGAGCA
* *
113835330 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
113835351 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
113835371 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:113840220 original size:11 final size:11
Alignment explanation
Indices: 113840193--113840240 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
113840183 CAACTAAGAA
113840193 TTTTGCTGCTTT
1 TTTTGCT-CTTT
*
113840205 CTTTGCTCTTT
1 TTTTGCTCTTT
*
113840216 TTTTG-TTTTT
1 TTTTGCTCTTT
*
113840226 TTTTTCTCTTT
1 TTTTGCTCTTT
113840237 TTTT
1 TTTT
113840241 CATGCAATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 8 0.27
11 16 0.53
12 6 0.20
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTGCTCTTT
Found at i:113841799 original size:26 final size:26
Alignment explanation
Indices: 113841768--113841818 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
113841758 AATTAAGCAC
*
113841768 ACATAATTGAGAATAATAAACTAAGA
1 ACATAATTGAGAACAATAAACTAAGA
113841794 ACATAATTGAGAACAATAAACTAAG
1 ACATAATTGAGAACAATAAACTAAG
113841819 TATTTGTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.22
Consensus pattern (26 bp):
ACATAATTGAGAACAATAAACTAAGA
Found at i:113841983 original size:28 final size:28
Alignment explanation
Indices: 113841943--113841999 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
113841933 AAAAAAGTTA
*
113841943 AGTTGGAGAAAAAAAGTGATGAATTTAG
1 AGTTAGAGAAAAAAAGTGATGAATTTAG
113841971 AGTTAGAGAAAAAAAGTGATGAATTTAG
1 AGTTAGAGAAAAAAAGTGATGAATTTAG
113841999 A
1 A
113842000 AAAGAATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (28 bp):
AGTTAGAGAAAAAAAGTGATGAATTTAG
Found at i:113845897 original size:25 final size:24
Alignment explanation
Indices: 113845869--113845923 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
113845859 ACATGAAATA
113845869 ATAAAAGAAATATATAACAAATAAC
1 ATAAAAG-AATATATAACAAATAAC
* * **
113845894 ATAAAAGTATATGTATGAAATAAC
1 ATAAAAGAATATATAACAAATAAC
113845918 ATAAAA
1 ATAAAA
113845924 ATATATGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (24 bp):
ATAAAAGAATATATAACAAATAAC
Found at i:113846327 original size:9 final size:9
Alignment explanation
Indices: 113846309--113846347 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
113846299 TATTATACAT
*
113846309 TAATACATA
1 TAATAAATA
113846318 TAATAAATA
1 TAATAAATA
* *
113846327 TATTTAATA
1 TAATAAATA
113846336 TAATAAATA
1 TAATAAATA
113846345 TAA
1 TAA
113846348 ATATTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
TAATAAATA
Found at i:113846980 original size:15 final size:15
Alignment explanation
Indices: 113846956--113846985 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113846946 ATCTACTTTT
113846956 TTCTTATTTTTTGTA
1 TTCTTATTTTTTGTA
*
113846971 TTCTTTTTTTTTGTA
1 TTCTTATTTTTTGTA
113846986 CTATATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (15 bp):
TTCTTATTTTTTGTA
Found at i:113848999 original size:18 final size:21
Alignment explanation
Indices: 113848973--113849011 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
113848963 TTTAAATTTC
113848973 TTTTATATTA-T-ATTTGAAA
1 TTTTATATTATTCATTTGAAA
113848992 TTTT-TATTATTCATTTGAAA
1 TTTTATATTATTCATTTGAAA
113849012 GTGTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTATATTATTCATTTGAAA
Found at i:113849001 original size:23 final size:23
Alignment explanation
Indices: 113848947--113849001 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
113848937 ATATATATCA
* *
113848947 TTTTATTATATTTTATTTTAAAT
1 TTTTATTATATTATATTTGAAAT
113848970 TTCTT-TTATATTATATTTGAAAT
1 TT-TTATTATATTATATTTGAAAT
113848993 TTTTATTAT
1 TTTTATTAT
113849002 TCATTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 24 0.86
24 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTATTATATTATATTTGAAAT
Found at i:113852895 original size:22 final size:24
Alignment explanation
Indices: 113852870--113852918 Score: 84
Period size: 22 Copynumber: 2.1 Consensus size: 24
113852860 TTAAAAAATA
113852870 TTTATATTATTTTAATT-TT-AAT
1 TTTATATTATTTTAATTATTGAAT
113852892 TTTATATTATTTTAATTATTGAAT
1 TTTATATTATTTTAATTATTGAAT
113852916 TTT
1 TTT
113852919 TTTATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 17 0.68
23 2 0.08
24 6 0.24
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTATATTATTTTAATTATTGAAT
Found at i:113854657 original size:14 final size:14
Alignment explanation
Indices: 113854635--113854665 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
113854625 GTTTCTGAAA
113854635 ATAAACTATAATTT
1 ATAAACTATAATTT
*
113854649 ATAATCTATAATTT
1 ATAAACTATAATTT
113854663 ATA
1 ATA
113854666 TAACATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAACTATAATTT
Found at i:113855394 original size:23 final size:24
Alignment explanation
Indices: 113855363--113855408 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
113855353 TTTAATTTTC
*
113855363 AAAATTTTTAAAAAATAAAAATAA
1 AAAATTTTCAAAAAATAAAAATAA
113855387 AAAATTTTCAAAAAATAAAAAT
1 AAAATTTTCAAAAAATAAAAAT
113855409 TACATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATTTTCAAAAAATAAAAATAA
Found at i:113855445 original size:30 final size:29
Alignment explanation
Indices: 113855405--113855506 Score: 114
Period size: 30 Copynumber: 3.4 Consensus size: 29
113855395 CAAAAAATAA
*
113855405 AAATTACATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTTGACCCCTAAAC-TTTCCT
* * *
113855435 AAATTTCATTTTTACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTC-CT
* *
113855465 AAATTTCACTTAGACCCCTAAACTTTCCTT
1 AAATTTCATTTTGACCCCTAAACTTTCC-T
*
113855495 AAATTGCATTTT
1 AAATTTCATTTT
113855507 AACCTTAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
29 4 0.07
30 54 0.93
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCCTAAACTTTCCT
Found at i:113855528 original size:59 final size:60
Alignment explanation
Indices: 113855402--113855536 Score: 166
Period size: 59 Copynumber: 2.3 Consensus size: 60
113855392 TTTCAAAAAA
* * * *
113855402 TAAAAATTACATTTTGACCCCTAAACTTTTCCTAAATTTCATTTTTACCCTTAAACTTTC
1 TAAAAATTACACTTAGACCCCTAAACTTTTCCTAAATTGCATTTTTAACCTTAAACTTTC
** * *
113855462 TTTAAATTTCACTTAGACCCCTAAAC-TTTCCTTAAATTGCA-TTTTAACCTTAAATTTTC
1 TAAAAATTACACTTAGACCCCTAAACTTTTCC-TAAATTGCATTTTTAACCTTAAACTTTC
*
113855521 TAAAAATTACATTTAG
1 TAAAAATTACACTTAG
113855537 CTCTAGAAGT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
59 33 0.53
60 29 0.47
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (60 bp):
TAAAAATTACACTTAGACCCCTAAACTTTTCCTAAATTGCATTTTTAACCTTAAACTTTC
Found at i:113855768 original size:16 final size:16
Alignment explanation
Indices: 113855747--113855786 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
113855737 AAAAAAAGAG
113855747 AAAAAAAAATTC-AGC
1 AAAAAAAAATTCTAGC
**
113855762 AAAAAAATTTTCTAGC
1 AAAAAAAAATTCTAGC
113855778 AAAAAAAAA
1 AAAAAAAAA
113855787 CAACAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.68, C:0.10, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAAAAAAATTCTAGC
Found at i:113856696 original size:19 final size:20
Alignment explanation
Indices: 113856669--113856750 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 20
113856659 TTTCTTTTAT
*
113856669 TGTAGATATTATTATTATTA
1 TGTACATATTATTATTATTA
113856689 T-TACATA-TATTTATTA-TA
1 TGTACATATTA-TTATTATTA
* *
113856707 TGCATATATATATATGTATTTTTA
1 TG--TACATAT-TAT-TATTATTA
113856731 TGTACATATTATTATT-TTA
1 TGTACATATTATTATTATTA
113856750 T
1 T
113856751 ATTATTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
18 5 0.10
19 15 0.30
20 5 0.10
21 8 0.16
22 7 0.14
23 6 0.12
24 4 0.08
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (20 bp):
TGTACATATTATTATTATTA
Found at i:113867861 original size:14 final size:15
Alignment explanation
Indices: 113867842--113867871 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
113867832 GCTGAGGTAA
113867842 TTTCAATTTAT-TTT
1 TTTCAATTTATATTT
113867856 TTTCAATTTATATTT
1 TTTCAATTTATATTT
113867871 T
1 T
113867872 GCAAAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCAATTTATATTT
Found at i:113867909 original size:87 final size:87
Alignment explanation
Indices: 113867786--113868356 Score: 548
Period size: 87 Copynumber: 6.8 Consensus size: 87
113867776 TTTGTCAAAA
* *
113867786 AAAAAGTCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
113867851 ATTTTTTTCAATTTATATTTTGC
65 CTTTTTTTCAATTTATATTTTTC
* * * * *
113867874 AAAAATCAATTCATATTGTGAGAGGTGAGTTGAGCCTCAGAACACGTTGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * * *
113867939 TGTTCTT-AA-TGACTGTTTTT-
66 TTTTTTTCAATTTA-TATTTTTC
113867959 --AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
113868022 TGTTTTTTCCAATCTATATTTTTC
66 T-TTTTTT-CAATTTATATTTTTC
* * *
113868046 AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGTTGAGGTATTTTCGATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
** *
113868111 CGTTTTTCAATTTATGTTTTTC
66 TTTTTTTCAATTTATATTTTTC
* * ** * *
113868133 AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
113868198 TATTTTT---TTTATA-----A
66 TTTTTTTCAATTTATATTTTTC
* ** * **
113868212 AAAAAGTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
113868277 CTGTCTTTC-----A-A------
65 CTTTTTTTCAATTTATATTTTTC
* *
113868288 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGATGTATTTTC-ATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
113868352 T-TTTT
64 TCTTTT
113868357 GCTTTTTCAA
Statistics
Matches: 404, Mismatches: 67, Indels: 37
0.80 0.13 0.07
Matches are distributed among these distances:
75 33 0.08
76 9 0.02
77 16 0.04
78 1 0.00
79 5 0.01
80 53 0.13
83 59 0.15
84 9 0.02
85 2 0.00
86 15 0.04
87 132 0.33
88 10 0.02
89 60 0.15
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TTTTTTTCAATTTATATTTTTC
Found at i:113868095 original size:172 final size:167
Alignment explanation
Indices: 113867795--113868356 Score: 600
Period size: 172 Copynumber: 3.4 Consensus size: 167
113867785 AAAAAAGTCG
*
113867795 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATTTTTTTC
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTTTTTTTC
* * *
113867860 AATTTATATTTTGCAAAAATCAATTCATATTGTGAGAGGTGAGTTGAGCCTCAGAACACGTTGAG
66 AA-TTATATTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAG
*
113867925 GTATTTTTAATTTCTGTTCTTAATGACTGTTTTTAAATCA
129 GTATTTTCAATTTCTGTTCTTAAT-ACTGTTTTTAAATCA
*
113867965 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-TTTTTT
*
113868030 CCAATCTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGTTG
65 -CAAT-TATA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTG
* * *
113868095 AGGTATTTTCGATTTCCGTTTTTCAATTTA-TGTTTTTCAAAAATCA
127 AGGTATTTTCAATTTCTGTTCTT-AA--TACTGTTTTT---AAATCA
* * ** *
113868141 ATTCATATTACGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTCCTATTTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-TTTTTT
* * ** * *
113868206 ---TTATA----AAAAAAGTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAG
65 CAATTATATTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAG
****
113868264 GTATTTTCAATTTCTG-TCTT--T-C---AAAAAAATCA
129 GTATTTTCAATTTCTGTTCTTAATACTGTTTTTAAATCA
* * *
113868296 ACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGATGTATTTTC-ATTT-TTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTTCTTTT
113868357 GCTTTTTCAA
Statistics
Matches: 339, Mismatches: 39, Indels: 44
0.80 0.09 0.10
Matches are distributed among these distances:
154 3 0.01
155 35 0.10
156 3 0.01
157 16 0.05
161 1 0.00
166 8 0.02
167 54 0.16
170 56 0.17
171 11 0.03
172 73 0.22
173 13 0.04
174 1 0.00
175 1 0.00
176 64 0.19
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (167 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTTTTTTTC
AATTATATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGT
ATTTTCAATTTCTGTTCTTAATACTGTTTTTAAATCA
Found at i:113868324 original size:75 final size:74
Alignment explanation
Indices: 113868114--113868398 Score: 259
Period size: 80 Copynumber: 3.7 Consensus size: 74
113868104 CGATTTCCGT
* * * **
113868114 TTTTCAATTTATGTTTTTC-AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTTGGGACAC
1 TTTTCAATTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
113868178 GCTGAGGTA
66 GCTGAGGTA
* * * * **
113868187 ATTTCAATTCCTATTTTTTTTATAAAAAAAGTCAACTTATATTGCGAGAAATGAGTTGAGCCTCA
1 TTTTCAA-T--T-TTTGTTTT-TCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* **
113868252 AGACACATTGAGGTA
60 GGACACGCTGAGGTA
* * *
113868267 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCA
1 TTTTCAATTTTTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
113868332 CACGCTGATGTA
63 CACGCTGAGGTA
* * *
113868344 TTTTCATTTTTTTGCTTTTTCAAAAGATCAACTCATAATT-CGATAGGTGAGTTGA
1 TTTTCA-ATTTTTG-TTTTTCAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGA
113868399 ACTTCGGGTC
Statistics
Matches: 166, Mismatches: 33, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
73 6 0.04
74 1 0.01
75 32 0.19
76 12 0.07
77 23 0.14
78 33 0.20
79 14 0.08
80 45 0.27
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (74 bp):
TTTTCAATTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:113868615 original size:23 final size:24
Alignment explanation
Indices: 113868584--113868629 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
113868574 TTTAATTTTC
*
113868584 AAAATTTTTAAAAAATAAAAATAA
1 AAAATTTTCAAAAAATAAAAATAA
113868608 AAAATTTTCAAAAAATAAAAAT
1 AAAATTTTCAAAAAATAAAAAT
113868630 TGCATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATTTTCAAAAAATAAAAATAA
Found at i:113868666 original size:30 final size:29
Alignment explanation
Indices: 113868626--113868745 Score: 127
Period size: 30 Copynumber: 4.1 Consensus size: 29
113868616 CAAAAAATAA
*
113868626 AAATTGCATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTTGACCCCTAAAC-TTTCCT
* *
113868656 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTC-CT
* *
113868686 AAATTTCACTTAGACCCCTAAACTTTCCTT
1 AAATTTCATTTTGACCCCTAAACTTTCC-T
* * *
113868716 AAATTACATTTT-AACCCTAAA-TTTTCT
1 AAATTTCATTTTGACCCCTAAACTTTCCT
113868743 AAA
1 AAA
113868746 AATTACATTT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
27 4 0.05
28 4 0.05
29 12 0.16
30 56 0.74
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATTTCATTTTGACCCCTAAACTTTCCT
Found at i:113869823 original size:17 final size:17
Alignment explanation
Indices: 113869784--113869825 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
113869774 TTTTTATAAC
*
113869784 TATATTATGTACATATA
1 TATATTTTGTACATATA
113869801 TATATTTTGTACATATCA
1 TATATTTTGTACATAT-A
113869819 T-TATTTT
1 TATATTTT
113869826 ATATTATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (17 bp):
TATATTTTGTACATATA
Found at i:113869964 original size:18 final size:18
Alignment explanation
Indices: 113869887--113869965 Score: 56
Period size: 18 Copynumber: 4.2 Consensus size: 18
113869877 TAATATTTTT
*
113869887 TTTATTGTAGATATTATTA
1 TTTA-TGTACATATTATTA
113869906 -TTAT-TACATA-TATTTA
1 TTTATGTACATATTA-TTA
*
113869922 TTATATGCATATATATATATGTA
1 TT-TATG--TACATAT-TAT-TA
113869945 TTTATGTACATATTATTA
1 TTTATGTACATATTATTA
113869963 TTT
1 TTT
113869966 TATATTATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 19
0.69 0.04 0.27
Matches are distributed among these distances:
15 2 0.04
16 8 0.17
17 2 0.04
18 11 0.23
19 3 0.06
20 6 0.12
21 5 0.10
22 5 0.10
23 6 0.12
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTATGTACATATTATTA
Found at i:113871093 original size:20 final size:21
Alignment explanation
Indices: 113871068--113871106 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
113871058 AAGAATGAGT
*
113871068 AGAATAAAGT-TTCTTGGAAG
1 AGAATAAACTATTCTTGGAAG
113871088 AGAATAAACTATTCTTGGA
1 AGAATAAACTATTCTTGGA
113871107 CTCTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (21 bp):
AGAATAAACTATTCTTGGAAG
Found at i:113871456 original size:26 final size:26
Alignment explanation
Indices: 113871422--113871472 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
113871412 TATAATCTTT
*
113871422 TCAATAGAAATTCTTTAAAAGAAAAG
1 TCAAGAGAAATTCTTTAAAAGAAAAG
113871448 TCAAGAGAAATTCTTTAAAAGAAAA
1 TCAAGAGAAATTCTTTAAAAGAAAA
113871473 AATGAAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (26 bp):
TCAAGAGAAATTCTTTAAAAGAAAAG
Found at i:113871486 original size:27 final size:26
Alignment explanation
Indices: 113871427--113871484 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
113871417 TCTTTTCAAT
* *
113871427 AGAAATTCTTTAAAAGAAAAGTCAAG
1 AGAAATTCTTTAAAAGAAAAATAAAG
113871453 AGAAATTCTTTAAAAGAAAAAATGAAAG
1 AGAAATTCTTTAAAAG-AAAAAT-AAAG
113871481 AGAA
1 AGAA
113871485 TTTTATTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 16 0.57
27 5 0.18
28 7 0.25
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.21
Consensus pattern (26 bp):
AGAAATTCTTTAAAAGAAAAATAAAG
Found at i:113877164 original size:22 final size:22
Alignment explanation
Indices: 113877126--113877173 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
113877116 AGAAATTAAG
113877126 TAGAAAAGAAGTATGAATTGAGT
1 TAGAAAAGAAG-ATGAATTGAGT
*
113877149 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTGAGT
113877171 TAG
1 TAG
113877174 GATTAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTGAGT
Found at i:113881590 original size:16 final size:16
Alignment explanation
Indices: 113881569--113881600 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
113881559 TAGCTAAGGC
113881569 GTCAGCCATTTAATTT
1 GTCAGCCATTTAATTT
*
113881585 GTCAGCTATTTAATTT
1 GTCAGCCATTTAATTT
113881601 TCATCTCGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (16 bp):
GTCAGCCATTTAATTT
Found at i:113883233 original size:246 final size:243
Alignment explanation
Indices: 113882748--113883250 Score: 591
Period size: 246 Copynumber: 2.1 Consensus size: 243
113882738 GCTTTTGTGT
** * * * *
113882748 TATTATT-TGTATTTGATTGAGTTAGTATCACAAGTTACCTTGATACTGACTCAAGATTGATAAC
1 TATTATTATGTATTTGATTGAACTAGTATCACAAGTTAACTCGACACAGACTCAAGATTGATAAC
** * * *
113882812 AACACCATAAAAAAACAATTTTAATTTTTTTTTCATTTTAACATCGTACATATTTTGTATTATTA
66 AACACCATAAAAAAACAATTTTAATTACTTTTTCATTCTAAAATCGTACATATTTCGTATTATTA
* * * * *
113882877 TTAATTAGTTTCAAACTATACGTTTTATTATTTATTGTATTTTATTTTTAAACACACATTTGTGT
131 TTAATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTTTTAAACACACATTTGTAT
* * * * * *
113882942 TCTAAATTTGTGGCTTCCACACGCATATGTATGTGATAGGATTTCTAG
196 TCTAAATTTGTGACTTCCACACGCATACGCATATGAAAAGATTTCTAG
* * *
113882990 TATTAGTTATGTATTTGATTGAACTGGTATTACAAGTTAACTCGACACAGACTCAAGATTGATGA
1 TATTA-TTATGTATTTGATTGAACTAGTATCACAAGTTAACTCGACACAGACTCAAGATTGATAA
*** *
113883055 CAACACCAT-GTTAAACAA-TTTAATCTAACTTTTTCATTCTAATAAT-GTACATATTTCACGTG
65 CAACACCATAAAAAAACAATTTTAAT-T-ACTTTTTCATTCTAA-AATCGTACATATTT--CGTA
* *
113883117 TTATTATTAATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTTTTAAACGCATAT
125 TTATTATTAATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTTTTAAACACACAT
* * * *
113883182 TTGTATTCTATATTTGTGATTTCCATACGCATACGCGTATGAAAAGATTTCTAG
190 TTGTATTCTAAATTTGTGACTTCCACACGCATACGCATATGAAAAGATTTCTAG
*
113883236 TATTAATAATGTATT
1 TATT-ATTATGTATT
113883251 AGATGACCAT
Statistics
Matches: 217, Mismatches: 36, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
242 11 0.05
243 9 0.04
244 78 0.36
245 2 0.01
246 116 0.53
247 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (243 bp):
TATTATTATGTATTTGATTGAACTAGTATCACAAGTTAACTCGACACAGACTCAAGATTGATAAC
AACACCATAAAAAAACAATTTTAATTACTTTTTCATTCTAAAATCGTACATATTTCGTATTATTA
TTAATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTTTTAAACACACATTTGTAT
TCTAAATTTGTGACTTCCACACGCATACGCATATGAAAAGATTTCTAG
Found at i:113884486 original size:41 final size:41
Alignment explanation
Indices: 113884405--113884486 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
113884395 TATTCTCACT
* ***
113884405 TGAAATTCAAAATTCGAAATCTAAAATAAAAAATCTAAACA
1 TGAAATTCAAAATTCGAAATCCAAAATAAAAAAGAAAAACA
* * *
113884446 TGAAATTCAAAATTTGAAATCCATAATCAAAAAGAAAAACA
1 TGAAATTCAAAATTCGAAATCCAAAATAAAAAAGAAAAACA
113884487 AAAAATAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.23
Consensus pattern (41 bp):
TGAAATTCAAAATTCGAAATCCAAAATAAAAAAGAAAAACA
Found at i:113887764 original size:6 final size:6
Alignment explanation
Indices: 113887750--113887791 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
113887740 CCCTGCAACA
* *
113887750 AATAAT AATAGT AATAAT AATAGT AATAGT AATAGT AATAGT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT
113887792 CGAACGTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (6 bp):
AATAGT
Found at i:113894676 original size:46 final size:46
Alignment explanation
Indices: 113894626--113894798 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
113894616 TGGTTGAGCA
113894626 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
113894672 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
113894717 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
113894765 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
113894799 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:113894782 original size:93 final size:93
Alignment explanation
Indices: 113894623--113894793 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
113894613 GGATGGTTGA
* *
113894623 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113894688 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
113894716 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113894781 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
113894794 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:113896628 original size:17 final size:17
Alignment explanation
Indices: 113896606--113896638 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
113896596 AATGTAAAAT
113896606 GTGCTAACTATTCATTC
1 GTGCTAACTATTCATTC
113896623 GTGCTAACTATTCATT
1 GTGCTAACTATTCATT
113896639 GGCGATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.42
Consensus pattern (17 bp):
GTGCTAACTATTCATTC
Found at i:113896681 original size:31 final size:31
Alignment explanation
Indices: 113896637--113896719 Score: 130
Period size: 31 Copynumber: 2.7 Consensus size: 31
113896627 TAACTATTCA
* * *
113896637 TTGGCGATATAAAATGTAAAATGTATTATCG
1 TTGGTGATGTAAAATGTAAAATGTATGATCG
*
113896668 TTGGTGATGTAAAATGTAAAATGTGTGATCG
1 TTGGTGATGTAAAATGTAAAATGTATGATCG
113896699 TTGGTGATGTAAAATGTAAAA
1 TTGGTGATGTAAAATGTAAAA
113896720 AGGTGCAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (31 bp):
TTGGTGATGTAAAATGTAAAATGTATGATCG
Found at i:113897026 original size:47 final size:47
Alignment explanation
Indices: 113896957--113897050 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
113896947 ACAAAGAGTT
*
113896957 CACGGAGGAGCCCAAATATTGAATATATGCTTCACCTCCGCGGAGAG
1 CACGGAGGAGCCCAAATATTGAATATATGCTTCACCTCCGCAGAGAG
* *
113897004 CACGGAGGAGCCCGAATATTGAATATATGCTTCACCTCTGCAGAGAG
1 CACGGAGGAGCCCAAATATTGAATATATGCTTCACCTCCGCAGAGAG
113897051 ACACAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (47 bp):
CACGGAGGAGCCCAAATATTGAATATATGCTTCACCTCCGCAGAGAG
Found at i:113898124 original size:35 final size:34
Alignment explanation
Indices: 113898085--113898190 Score: 126
Period size: 34 Copynumber: 3.1 Consensus size: 34
113898075 AGTAATGAAT
*
113898085 GTCTTGCTCCCGCAA-ATGGAGGAAGGCTTACGGAG
1 GTCTTGCTCCC-AAACATGG-GGAAGGCTTACGGAG
*
113898120 GTCTTGGTCCCAAACATGGGGAA-GCTTACGGGAG
1 GTCTTGCTCCCAAACATGGGGAAGGCTTAC-GGAG
* *
113898154 GTCCTGCTCCCAAACATAGGGAAGGCTTACGAGAG
1 GTCTTGCTCCCAAACATGGGGAAGGCTTACG-GAG
113898189 GT
1 GT
113898191 ATCATATGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
33 6 0.10
34 31 0.50
35 25 0.40
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.20
Consensus pattern (34 bp):
GTCTTGCTCCCAAACATGGGGAAGGCTTACGGAG
Found at i:113898599 original size:12 final size:12
Alignment explanation
Indices: 113898582--113898607 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
113898572 ACGAGACAAA
113898582 GTAAAACATTTT
1 GTAAAACATTTT
113898594 GTAAAACATTTT
1 GTAAAACATTTT
113898606 GT
1 GT
113898608 TTAATAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (12 bp):
GTAAAACATTTT
Found at i:113903557 original size:21 final size:21
Alignment explanation
Indices: 113903533--113903577 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
113903523 TAGCAATAAC
113903533 AAAGGGGAGTCAAATACCATG
1 AAAGGGGAGTCAAATACCATG
** **
113903554 AAAGTTGCTTCAAATACCATG
1 AAAGGGGAGTCAAATACCATG
113903575 AAA
1 AAA
113903578 CCTGCAAGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (21 bp):
AAAGGGGAGTCAAATACCATG
Found at i:113914416 original size:23 final size:23
Alignment explanation
Indices: 113914371--113914416 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113914361 TTTGTTTCCT
* * *
113914371 TTTGCCTTCTCTTTTGCTGGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
*
113914394 TTTGTCTTCTCGTTTGATAGAAA
1 TTTGCCTTCTCGTTTGATAGAAA
113914417 ATGCCTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
TTTGCCTTCTCGTTTGATAGAAA
Found at i:113924432 original size:5 final size:5
Alignment explanation
Indices: 113924393--113924465 Score: 67
Period size: 5 Copynumber: 13.8 Consensus size: 5
113924383 CAACCCAATC
**
113924393 TTTATT TTTATT TTTATT TATTAT TTTCC TTTAT TTTAT TTTAT TATT-T
1 TTTA-T TTTA-T TTTA-T T-TTAT TTTAT TTTAT TTTAT TTTAT T-TTAT
*
113924442 ATTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTA
113924466 GTTAAATATT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
4 2 0.03
5 36 0.62
6 17 0.29
7 3 0.05
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:113924442 original size:30 final size:30
Alignment explanation
Indices: 113924392--113924465 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
113924382 GCAACCCAAT
*
113924392 CTTTATTTT-TATTT-TTATTTATTATTTTC
1 CTTTATTTTAT-TTTATTATTTATTATTTTA
113924421 CTTTATTTTATTTTATTATTTATTATTTTA
1 CTTTATTTTATTTTATTATTTATTATTTTA
*
113924451 TTTTATTTTATTTTA
1 CTTTATTTTATTTTA
113924466 GTTAAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 12 0.29
30 29 0.71
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (30 bp):
CTTTATTTTATTTTATTATTTATTATTTTA
Found at i:113924619 original size:42 final size:42
Alignment explanation
Indices: 113924571--113924669 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 42
113924561 ATCCATGGTA
* * * *
113924571 CCAAACAGTTCTATTCCGGCGCATAATGCCATATCCCTACTG
1 CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCCCTACAG
* * * *
113924613 CCAAACAGTTCTATTCTAGCCCAGAATGTCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCCCTACAG
*
113924655 CCAAACAGTCCTATT
1 CCAAACAGTTCTATT
113924670 TTAGCCTTAG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.27
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCCCTACAG
Found at i:113925822 original size:9 final size:9
Alignment explanation
Indices: 113925808--113925838 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
113925798 AAATAATAAT
113925808 AAAATTAAA
1 AAAATTAAA
113925817 AAAATTAAAA
1 AAAATT-AAA
113925827 AAAATTAAA
1 AAAATTAAA
113925836 AAA
1 AAA
113925839 GGAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATTAAA
Found at i:113925827 original size:10 final size:10
Alignment explanation
Indices: 113925808--113925838 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
113925798 AAATAATAAT
113925808 AAAATT-AAA
1 AAAATTAAAA
113925817 AAAATTAAAA
1 AAAATTAAAA
113925827 AAAATTAAAA
1 AAAATTAAAA
113925837 AA
1 AA
113925839 GGAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:113925845 original size:19 final size:19
Alignment explanation
Indices: 113925808--113925849 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
113925798 AAATAATAAT
**
113925808 AAAATTAAAAAAATTAAAA
1 AAAATTAAAAAAAGAAAAA
*
113925827 AAAATTAAAAAAGGAAAAA
1 AAAATTAAAAAAAGAAAAA
113925846 AAAA
1 AAAA
113925850 AGAAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAATTAAAAAAAGAAAAA
Found at i:113930957 original size:21 final size:21
Alignment explanation
Indices: 113930931--113930974 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
113930921 ATGGCCATTT
113930931 GAGGTACCATTTTGAGTGATG
1 GAGGTACCATTTTGAGTGATG
113930952 GAGGTACCATTTTGAGTGATG
1 GAGGTACCATTTTGAGTGATG
113930973 GA
1 GA
113930975 CTCCATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.09, G:0.34, T:0.32
Consensus pattern (21 bp):
GAGGTACCATTTTGAGTGATG
Found at i:113932633 original size:44 final size:44
Alignment explanation
Indices: 113932566--113932649 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
113932556 ATGAATTAAC
113932566 TCGGTCCAATGTATAACACTAACAACATATATAATTGCTCCAAG
1 TCGGTCCAATGTATAACACTAACAACATATATAATTGCTCCAAG
* *
113932610 TCGGTCCAATGTATAGCATTAACAACATATATAATTGCTC
1 TCGGTCCAATGTATAACACTAACAACATATATAATTGCTC
113932650 AAACTCGATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (44 bp):
TCGGTCCAATGTATAACACTAACAACATATATAATTGCTCCAAG
Found at i:113935485 original size:23 final size:23
Alignment explanation
Indices: 113935441--113935485 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
113935431 TTATATCATG
* * *
113935441 TAAATATTAAATATATTATAATA
1 TAAATATTAAAAAAATGATAATA
*
113935464 TAAATATTAAAAAAATGCTAAT
1 TAAATATTAAAAAAATGATAAT
113935486 TACTTTATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
TAAATATTAAAAAAATGATAATA
Found at i:113935515 original size:12 final size:12
Alignment explanation
Indices: 113935498--113935531 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
113935488 CTTTATTTTT
113935498 AAAAATTTAATA
1 AAAAATTTAATA
*
113935510 AAAAATATAATA
1 AAAAATTTAATA
113935522 AAATAATTTA
1 AAA-AATTTA
113935532 TATATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATTTAATA
Found at i:113944981 original size:19 final size:20
Alignment explanation
Indices: 113944940--113944989 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
113944930 ATGGAAGTAT
*
113944940 GAATTTAAATTTTTACATTG
1 GAATTTAAATTATTACATTG
*
113944960 GAATTTAAATTATTA-TTTG
1 GAATTTAAATTATTACATTG
113944979 GAATTTAAATT
1 GAATTTAAATT
113944990 TGTTTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (20 bp):
GAATTTAAATTATTACATTG
Found at i:113947763 original size:17 final size:17
Alignment explanation
Indices: 113947732--113947771 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
113947722 TACTTTTAAA
*
113947732 ATATAT-ATTTAAATAT
1 ATATATAATGTAAATAT
113947748 ATATATAATGTAAATAT
1 ATATATAATGTAAATAT
*
113947765 ACATATA
1 ATATATA
113947772 TTTAAAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
ATATATAATGTAAATAT
Found at i:113957834 original size:18 final size:20
Alignment explanation
Indices: 113957801--113957842 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
113957791 GAAAGAAAAT
113957801 CAAACCTTTTTATTTTACAC
1 CAAACCTTTTTATTTTACAC
*
113957821 CAAA-CTTTTT-TTTTAGAC
1 CAAACCTTTTTATTTTACAC
113957839 CAAA
1 CAAA
113957843 ATTTGTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 4 0.19
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.43
Consensus pattern (20 bp):
CAAACCTTTTTATTTTACAC
Found at i:113961749 original size:13 final size:13
Alignment explanation
Indices: 113961733--113961758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113961723 AGAACAGGGG
113961733 AGAAAGAAAGGAA
1 AGAAAGAAAGGAA
113961746 AGAAAGAAAGGAA
1 AGAAAGAAAGGAA
113961759 GGGAGAAAAG
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGGAA
Found at i:113962990 original size:15 final size:15
Alignment explanation
Indices: 113962967--113963014 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
113962957 TATCAAATTT
113962967 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* *
113962982 ATTTTGATT-AAATTT
1 ATATTGATTGAAA-TC
113962997 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
113963011 ATAT
1 ATAT
113963015 ATTATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.25
15 18 0.64
16 3 0.11
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:113963670 original size:18 final size:19
Alignment explanation
Indices: 113963649--113963689 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
113963639 AATGAAATGA
113963649 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
113963667 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
113963686 GAAA
1 GAAA
113963690 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:113966179 original size:85 final size:82
Alignment explanation
Indices: 113966036--113966200 Score: 278
Period size: 85 Copynumber: 2.0 Consensus size: 82
113966026 ATGGTGTGCT
113966036 GCATACATCTCGTGTTGATGTACAAGGGCCACTTTTGAATAGTATATTTGCATGAGTTTTTTTTA
1 GCATACATCTCGTGTTGATGTACAAGGGCCACTTTTGAATAGTATATTTGCATGAG---TTTTTA
113966101 AAAAAAAAGAACTAATTTCC
63 AAAAAAAAGAACTAATTTCC
*
113966121 GCATACATCTCGTGTTGATGTAC-AGGGACCACTTTTGAATAGTATCTTTGCATGAGTTTTTAAA
1 GCATACATCTCGTGTTGATGTACAAGGG-CCACTTTTGAATAGTATATTTGCATGAGTTTTTAAA
113966185 AAAAAAGAACTAATTT
65 AAAAAAGAACTAATTT
113966201 ACTCTTTGAT
Statistics
Matches: 78, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
82 24 0.31
84 4 0.05
85 50 0.64
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (82 bp):
GCATACATCTCGTGTTGATGTACAAGGGCCACTTTTGAATAGTATATTTGCATGAGTTTTTAAAA
AAAAAGAACTAATTTCC
Found at i:113981169 original size:23 final size:22
Alignment explanation
Indices: 113981143--113981186 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
113981133 ATACTCATAT
113981143 TAAATATAAATTTAAATAATAAG
1 TAAATATAAATTTAAA-AATAAG
* *
113981166 TAAATTTAAATTTTAAAATAA
1 TAAATATAAATTTAAAAATAA
113981187 ATTTACAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAATATAAATTTAAAAATAAG
Found at i:113984898 original size:29 final size:29
Alignment explanation
Indices: 113984856--113984915 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
113984846 GCTCCAAGCG
113984856 TTGTCATCAACCCTGTTTACCTTTCAATT
1 TTGTCATCAACCCTGTTTACCTTTCAATT
113984885 TTGTCATCAACCCTGTTTACCTTTCAATT
1 TTGTCATCAACCCTGTTTACCTTTCAATT
113984914 TT
1 TT
113984916 CTTTCTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (29 bp):
TTGTCATCAACCCTGTTTACCTTTCAATT
Found at i:113991176 original size:31 final size:29
Alignment explanation
Indices: 113991136--113991196 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 29
113991126 CAAAATCTAT
*
113991136 AAAATTAATGTTTCTTACAATAGTTGACATTC
1 AAAATTAATGCTTCTTAC---AGTTGACATTC
113991168 AAAA-TAATGCTTCTTACAGTTGACATTC
1 AAAATTAATGCTTCTTACAGTTGACATTC
113991196 A
1 A
113991197 TTTATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 12 0.43
31 12 0.43
32 4 0.14
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (29 bp):
AAAATTAATGCTTCTTACAGTTGACATTC
Found at i:113996768 original size:12 final size:13
Alignment explanation
Indices: 113996750--113996779 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
113996740 TGTAGTTTTC
113996750 AGAAAATGAAAAT
1 AGAAAATGAAAAT
113996763 -GAAAATGAAAAT
1 AGAAAATGAAAAT
113996775 AGAAA
1 AGAAA
113996780 TGATCCATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (13 bp):
AGAAAATGAAAAT
Found at i:113996957 original size:26 final size:26
Alignment explanation
Indices: 113996921--113996984 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
113996911 ACATATTTTC
*
113996921 TCAAAATTTTATCAATGG-CAAAATCG
1 TCAAAATTTTA-CAAGGGACAAAATCG
* *
113996947 TCAAAATTTTACTAGGGATAAAATCG
1 TCAAAATTTTACAAGGGACAAAATCG
113996973 TCAAAATTTTAC
1 TCAAAATTTTAC
113996985 TGCAGGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACAAGGGACAAAATCG
Found at i:113998251 original size:21 final size:22
Alignment explanation
Indices: 113998205--113998250 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
113998195 TTTAATATTG
113998205 TTTT-TTATTTTGATCTTAATT
1 TTTTATTATTTTGATCTTAATT
113998226 TTTTATTATTTTGATCTTAATT
1 TTTTATTATTTTGATCTTAATT
113998248 TTT
1 TTT
113998251 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTATTATTTTGATCTTAATT
Found at i:113998257 original size:21 final size:22
Alignment explanation
Indices: 113998211--113998258 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
113998201 ATTGTTTTTT
**
113998211 ATTTTGATCTTAATTTTTTATT
1 ATTTTGATCTTAATTTTTTAAA
113998233 ATTTTGATCTTAA-TTTTTAAA
1 ATTTTGATCTTAATTTTTTAAA
113998254 ATTTT
1 ATTTT
113998259 AATTAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTTTGATCTTAATTTTTTAAA
Found at i:114007512 original size:25 final size:25
Alignment explanation
Indices: 114007483--114007542 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
114007473 TGGTCCTTTT
114007483 ATTAAAAATTCCATCCATTTTTACA
1 ATTAAAAATTCCATCCATTTTTACA
114007508 ATTAAAAATTCCATCCATTTTTACA
1 ATTAAAAATTCCATCCATTTTTACA
114007533 ATTAAAAATT
1 ATTAAAAATT
114007543 GGTCCCTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (25 bp):
ATTAAAAATTCCATCCATTTTTACA
Found at i:114014989 original size:5 final size:5
Alignment explanation
Indices: 114014979--114015006 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
114014969 CTGTTTGGAT
114014979 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAA
114015007 TTTGATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:114016111 original size:21 final size:20
Alignment explanation
Indices: 114016053--114016118 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
114016043 TTATCAAATG
114016053 TATATAAAAATTAAAATATA
1 TATATAAAAATTAAAATATA
* ** *
114016073 TATATAAAGTATGGAAATAAA
1 TATATAAA-AATTAAAATATA
114016094 TATATAAAAATTCAAAATATA
1 TATATAAAAATT-AAAATATA
114016115 TATA
1 TATA
114016119 ATCAAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 10 0.28
21 26 0.72
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
TATATAAAAATTAAAATATA
Found at i:114016133 original size:42 final size:41
Alignment explanation
Indices: 114016053--114016133 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
114016043 TTATCAAATG
***
114016053 TATATAAAAATTAAAATATATATATAAAGTATGGAAATAAA
1 TATATAAAAATTAAAATATATATATAAAGTAAAAAAATAAA
*
114016094 TATATAAAAATTCAAAATATATATAATCAAG-AAAAAAATA
1 TATATAAAAATT-AAAATATATAT-ATAAAGTAAAAAAATA
114016134 TAACTCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 12 0.35
42 17 0.50
43 5 0.15
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (41 bp):
TATATAAAAATTAAAATATATATATAAAGTAAAAAAATAAA
Found at i:114016244 original size:19 final size:19
Alignment explanation
Indices: 114016216--114016253 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
114016206 AATATGAAAA
*
114016216 AAAAACTTGTAACTATTAT
1 AAAAACTTGTAAATATTAT
*
114016235 AAAAATTTGTAAATATTAT
1 AAAAACTTGTAAATATTAT
114016254 TTTAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (19 bp):
AAAAACTTGTAAATATTAT
Found at i:114016280 original size:20 final size:20
Alignment explanation
Indices: 114016216--114016281 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
114016206 AATATGAAAA
* *
114016216 AAAAACTTGTAACTATTA-T
1 AAAAATTTGTAAATATTATT
114016235 AAAAATTTGTAAATATTATT
1 AAAAATTTGTAAATATTATT
** * *
114016255 TTAAATTTTTAAATTTTATT
1 AAAAATTTGTAAATATTATT
114016275 AAAAATT
1 AAAAATT
114016282 ATAAAAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 16 0.42
20 22 0.58
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
AAAAATTTGTAAATATTATT
Found at i:114016476 original size:23 final size:23
Alignment explanation
Indices: 114016450--114016493 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
114016440 AAAATTTATA
* *
114016450 TTTTAATTAAAAA-TTGTTATTT
1 TTTTTATTAAAAACGTGTTATTT
*
114016472 TTTTTGTTAAAAACGTGTTATT
1 TTTTTATTAAAAACGTGTTATT
114016494 AATAATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTTTATTAAAAACGTGTTATTT
Found at i:114016807 original size:36 final size:36
Alignment explanation
Indices: 114016754--114016828 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
114016744 CAGAGGCAAC
114016754 TTTACGCCCTAGCTCCTTAAAATAAAAAATTATTGT
1 TTTACGCCCTAGCTCCTTAAAATAAAAAATTATTGT
* *
114016790 TTTATGCCCTAGTTCCTTAAAATAAAAAATTATTGT
1 TTTACGCCCTAGCTCCTTAAAATAAAAAATTATTGT
114016826 TTT
1 TTT
114016829 TACCATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (36 bp):
TTTACGCCCTAGCTCCTTAAAATAAAAAATTATTGT
Found at i:114018346 original size:14 final size:13
Alignment explanation
Indices: 114018309--114018347 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
114018299 TTAACATATA
114018309 TAATTAATATAAT
1 TAATTAATATAAT
**
114018322 TAATTTTTATAACT
1 TAATTAATATAA-T
114018336 TAATTAATATAA
1 TAATTAATATAA
114018348 ATATATATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTAATATAAT
Found at i:114021797 original size:17 final size:17
Alignment explanation
Indices: 114021775--114021809 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
114021765 CGAGCTTGTG
114021775 TTAGTCTAACTAGACTC
1 TTAGTCTAACTAGACTC
114021792 TTAGTCTAACTAGACTC
1 TTAGTCTAACTAGACTC
114021809 T
1 T
114021810 CCAATTGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (17 bp):
TTAGTCTAACTAGACTC
Found at i:114031927 original size:12 final size:12
Alignment explanation
Indices: 114031910--114031935 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
114031900 GTAACAAAAC
114031910 GACAATATAAGT
1 GACAATATAAGT
114031922 GACAATATAAGT
1 GACAATATAAGT
114031934 GA
1 GA
114031936 GTATAAGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (12 bp):
GACAATATAAGT
Found at i:114036723 original size:11 final size:12
Alignment explanation
Indices: 114036709--114036737 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
114036699 TTATTAATGG
114036709 TGAATG-ATATT
1 TGAATGAATATT
114036720 TGAATGAATATT
1 TGAATGAATATT
114036732 TGAATG
1 TGAATG
114036738 TTCTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:114047499 original size:10 final size:11
Alignment explanation
Indices: 114047479--114047503 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
114047469 TCTTCTGACA
114047479 TTTGTTTTTTT
1 TTTGTTTTTTT
114047490 TTTGTTTTTTT
1 TTTGTTTTTTT
114047501 TTT
1 TTT
114047504 TAAATTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTGTTTTTTT
Found at i:114048464 original size:27 final size:26
Alignment explanation
Indices: 114048434--114048485 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
114048424 TGTAAGTGAC
114048434 TAAAATGTAATATAAAAAAAAC-ATTTA
1 TAAAAT-TAA-ATAAAAAAAACTATTTA
* *
114048461 TAAAGTTAAATAAAAACAACTATTT
1 TAAAATTAAATAAAAAAAACTATTT
114048486 TTCTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 10 0.45
26 7 0.32
27 5 0.23
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (26 bp):
TAAAATTAAATAAAAAAAACTATTTA
Found at i:114051809 original size:17 final size:17
Alignment explanation
Indices: 114051787--114051821 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
114051777 CACATGACGC
114051787 ATCATATATGCCTGATT
1 ATCATATATGCCTGATT
114051804 ATCATATATGCCTGATT
1 ATCATATATGCCTGATT
114051821 A
1 A
114051822 GAGTGGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (17 bp):
ATCATATATGCCTGATT
Found at i:114055019 original size:26 final size:26
Alignment explanation
Indices: 114054989--114055073 Score: 119
Period size: 26 Copynumber: 3.5 Consensus size: 26
114054979 GAGCATAAAA
114054989 TTTAAATATTTTTGTCCAATAAATAT
1 TTTAAATATTTTTGTCCAATAAATAT
*
114055015 TTTAAAT-TTTTT-TAC-ATAAA-A-
1 TTTAAATATTTTTGTCCAATAAATAT
114055036 TTTAAATATTTTTGTCCAATAAATAT
1 TTTAAATATTTTTGTCCAATAAATAT
114055062 TTTAAA-ATTTTT
1 TTTAAATATTTTT
114055074 TAAATAATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
21 7 0.13
22 6 0.12
23 7 0.13
24 7 0.13
25 12 0.23
26 13 0.25
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTAAATATTTTTGTCCAATAAATAT
Found at i:114055023 original size:24 final size:24
Alignment explanation
Indices: 114054983--114055073 Score: 109
Period size: 25 Copynumber: 3.8 Consensus size: 24
114054973 AGATTCGAGC
114054983 ATAAAATTTAAATATTTTTGTCCA
1 ATAAAATTTAAATATTTTTGTCCA
*
114055007 ATAAATATTTTAAAT-TTTTT-TAC-
1 ATAAA-A-TTTAAATATTTTTGTCCA
114055030 ATAAAATTTAAATATTTTTGTCCA
1 ATAAAATTTAAATATTTTTGTCCA
114055054 ATAAATATTTTAAA-ATTTTT
1 ATAAA-A-TTTAAATATTTTT
114055074 TAAATAATTA
Statistics
Matches: 58, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.12
22 6 0.10
23 7 0.12
24 12 0.21
25 13 0.22
26 13 0.22
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (24 bp):
ATAAAATTTAAATATTTTTGTCCA
Done.