Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 194 of 203
Found at i:61950289 original size:18 final size:18
Alignment explanation
Indices: 61950262--61950307 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
61950252 TTGGTTAAGG
*
61950262 TCGCATCTTTAAATGAGC
1 TCGCAACTTTAAATGAGC
* *
61950280 TCGCAACTTTGAGTGAGC
1 TCGCAACTTTAAATGAGC
*
61950298 TCACAACTTT
1 TCGCAACTTT
61950308 GTGATCTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (18 bp):
TCGCAACTTTAAATGAGC
Found at i:61952546 original size:18 final size:18
Alignment explanation
Indices: 61952511--61952547 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
61952501 CTTGTTGACC
* *
61952511 TTGTCAATAATTTGATTT
1 TTGTCAATAACTTCATTT
61952529 TTGTCAATAACTTCATTT
1 TTGTCAATAACTTCATTT
61952547 T
1 T
61952548 CAAGAGCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (18 bp):
TTGTCAATAACTTCATTT
Found at i:61955084 original size:26 final size:26
Alignment explanation
Indices: 61955045--61955097 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
61955035 GTGAAAAAGG
61955045 CATACATGCACTCTGTATTTTCTAAC
1 CATACATGCACTCTGTATTTTCTAAC
* *
61955071 CATACTTGCGCTCTGTATTTTCTAAC
1 CATACATGCACTCTGTATTTTCTAAC
61955097 C
1 C
61955098 GCTTATCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (26 bp):
CATACATGCACTCTGTATTTTCTAAC
Found at i:61958563 original size:23 final size:24
Alignment explanation
Indices: 61958493--61958565 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
61958483 CATAATTTAT
*
61958493 TTTATAAAATTATAAAAAAATATT-
1 TTTAAAAAATTATAAAAAAA-ATTC
* * * **
61958517 TTTATAAATTTGTAAATATGAATTC
1 TTTAAAAAATTATAAA-AAAAATTC
61958542 TTTAAAAAATT-TAAAAAAAATTC
1 TTTAAAAAATTATAAAAAAAATTC
61958565 T
1 T
61958566 AAACAATTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
23 7 0.18
24 21 0.54
25 11 0.28
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (24 bp):
TTTAAAAAATTATAAAAAAAATTC
Found at i:61959119 original size:19 final size:19
Alignment explanation
Indices: 61959095--61959141 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
61959085 ACAAGTTAGT
61959095 AATGTGAATCCAAAATTAA
1 AATGTGAATCCAAAATTAA
61959114 AATGTGAATCCAAAATTAA
1 AATGTGAATCCAAAATTAA
*
61959133 AATATGAAT
1 AATGTGAAT
61959142 TAAAGTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.28
Consensus pattern (19 bp):
AATGTGAATCCAAAATTAA
Found at i:61962240 original size:37 final size:37
Alignment explanation
Indices: 61962183--61962288 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
61962173 TATGATCACT
*
61962183 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
61962218 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
*
61962255 TATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
61962289 GAAGCTATCA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:61962330 original size:52 final size:52
Alignment explanation
Indices: 61962251--61962519 Score: 352
Period size: 52 Copynumber: 5.2 Consensus size: 52
61962241 TAAGTGTAGC
* *
61962251 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
61962304 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * **
61962356 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
61962408 CAC---T---TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * ** *
61962454 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
61962506 CACTTTGTCACTTG
1 CACTTT-TCACTTG
61962520 ATCAGAAGTA
Statistics
Matches: 187, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
46 40 0.21
52 132 0.71
53 15 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:61962422 original size:46 final size:46
Alignment explanation
Indices: 61962353--61962525 Score: 215
Period size: 46 Copynumber: 3.7 Consensus size: 46
61962343 AGCTATTACT
61962353 TATCACTT-TCCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTAT-CACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
* * **
61962398 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
*
61962444 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTAAAGC
*
61962496 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
61962526 AGTACTCAAA
Statistics
Matches: 109, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
45 11 0.10
46 57 0.52
48 1 0.01
50 1 0.01
52 39 0.36
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
Found at i:61962433 original size:98 final size:98
Alignment explanation
Indices: 61962262--61962525 Score: 420
Period size: 98 Copynumber: 2.6 Consensus size: 98
61962252 ACTTATCACT
* * **
61962262 TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATC
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC---T---TTGTCACTTGATC
61962327 AGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
60 AGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
*
61962366 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
61962431 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
*
61962464 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
61962526 AGTACTCAAA
Statistics
Matches: 153, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
98 111 0.73
101 1 0.01
104 41 0.27
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:61965316 original size:497 final size:497
Alignment explanation
Indices: 61964460--61967264 Score: 5585
Period size: 497 Copynumber: 5.6 Consensus size: 497
61964450 AAATTCAAGC
61964460 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
1 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
61964525 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
66 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
61964590 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
131 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
61964655 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
196 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
61964720 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
261 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
61964785 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
326 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
61964850 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
391 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
61964915 TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
456 TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
61964957 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
1 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
61965022 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
66 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
61965087 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
131 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
61965152 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
196 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
61965217 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
261 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
61965282 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
326 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
61965347 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
391 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
61965412 TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
456 TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
61965454 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
1 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
61965519 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
66 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
61965584 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
131 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
61965649 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
196 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
61965714 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
261 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
61965779 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
326 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
61965844 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
391 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
61965909 TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
456 TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
61965951 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
1 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
61966016 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
66 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
61966081 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
131 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
61966146 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
196 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
61966211 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
261 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
61966276 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
326 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
61966341 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
391 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
61966406 TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
456 TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
61966448 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
1 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
61966513 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
66 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
61966578 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
131 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
61966643 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
196 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
61966708 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
261 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
61966773 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
326 CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
61966838 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTC-AAAATAATTAACATGTTTCTA
391 GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
*
61966902 TAACTTTTCACAATATATCCTCAAAATATTATAATCATAATA
456 TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
61966944 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
1 ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
*
61967009 TCGCAATTTCTCATGTTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
66 TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
61967074 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
131 TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
61967139 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
196 CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
61967204 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCA
261 AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCA
61967265 TTTGTCACTT
Statistics
Matches: 2306, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
496 382 0.17
497 1924 0.83
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.34
Consensus pattern (497 bp):
ATTAGGGCCTGCGAGACCCGATACATACTCATGCAATTTAATGCTTCATTTCCATTTCATTCAAT
TCGCAATTTCTCATGCTCATAATTTAAATCATATCACTAGCAATTTCCATTTAATTCACGTACAA
TTCAATGACATCAAATTCAAAACTAATACGTATTTACCATTTAACTCAATGTTTATTGATTATAC
CATTCAATAACACATTTATGAAATTCTCAATTTAGCAATGAAAATATCACTTTAGTTTGAATAAC
AACATCGTCCTGATATAAATACACTACCACTTATCCATTTACTTTAATTCTTTTGGGCCCAACCC
CCCTTCCCCGTATCCAACACCGGAATAGGGTACGAGGCATTACCAAAACACATACACTTGTAAAC
GTATTTAACCGAGTTATAAAATTTCATCAAAATTAAAACTTTCAAAAATAATTAACATGTTTCTA
TAACTTTTCACAATATATTCTCAAAATATTATAATCATAATA
Found at i:61967426 original size:37 final size:37
Alignment explanation
Indices: 61967365--61967630 Score: 392
Period size: 37 Copynumber: 7.0 Consensus size: 37
61967355 TACGTATGAT
* *
61967365 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
61967400 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
61967437 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
61967474 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
61967511 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
61967548 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T--AGC
*
61967591 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ---CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
61967631 TAAAGCTATC
Statistics
Matches: 215, Mismatches: 5, Indels: 17
0.91 0.02 0.07
Matches are distributed among these distances:
35 9 0.04
36 3 0.01
37 159 0.74
39 2 0.01
40 4 0.02
41 1 0.00
42 1 0.00
43 4 0.02
44 2 0.01
46 30 0.14
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:61967601 original size:46 final size:46
Alignment explanation
Indices: 61967548--61967960 Score: 520
Period size: 46 Copynumber: 8.6 Consensus size: 46
61967538 TAAGTGTAGC
* *
61967548 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
61967594 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * * *
61967640 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
61967686 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
61967738 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
61967784 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
61967836 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
61967882 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
61967934 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
61967961 AGTACTCAAA
Statistics
Matches: 327, Mismatches: 22, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
46 198 0.61
48 2 0.01
49 2 0.01
50 2 0.01
52 123 0.38
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:61967748 original size:98 final size:98
Alignment explanation
Indices: 61967548--61967960 Score: 667
Period size: 98 Copynumber: 4.3 Consensus size: 98
61967538 TAAGTGTAGC
* * **
61967548 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
61967607 GTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
61967640 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
61967705 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
61967738 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
61967803 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
61967836 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
61967901 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
61967934 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
61967961 AGTACTCAAA
Statistics
Matches: 303, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
92 52 0.17
94 1 0.00
98 250 0.83
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:61971285 original size:26 final size:25
Alignment explanation
Indices: 61971256--61971393 Score: 115
Period size: 26 Copynumber: 5.6 Consensus size: 25
61971246 AAACGAAACA
61971256 AAATAATATATAGAACAATTTGAAGT
1 AAATAATATATA-AACAATTTGAAGT
*
61971282 AAATAATATA-AAACAATCTGAAGT
1 AAATAATATATAAACAATTTGAAGT
* * * *
61971306 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATAT-AAACAATTTGAAGT
* * * *
61971332 AAATAATATACAAAGCGATTTAAAAT
1 AAATAATATATAAA-CAATTTGAAGT
*
61971358 AAATAACATATAAGACAATTT--A--
1 AAATAATATATAA-ACAATTTGAAGT
61971380 AAATAATATATAAA
1 AAATAATATATAAA
61971394 AGGCTTGAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 13
0.78 0.12 0.11
Matches are distributed among these distances:
21 1 0.01
22 12 0.13
24 22 0.23
25 4 0.04
26 54 0.57
27 1 0.01
ACGTcount: A:0.60, C:0.06, G:0.07, T:0.28
Consensus pattern (25 bp):
AAATAATATATAAACAATTTGAAGT
Found at i:61971323 original size:50 final size:49
Alignment explanation
Indices: 61971256--61971445 Score: 177
Period size: 50 Copynumber: 3.8 Consensus size: 49
61971246 AAACGAAACA
* * * * *
61971256 AAATAATATATAGAACAATTTGAAGTAAATAATATAAAACAATCTGAAGT
1 AAATAATATATAAAACAATTTAAAATAAATAATATAAAACGAT-TGAAAT
* * *
61971306 AAATAATATGTAAAACAAATTAAAATAAATAATATACAAAGCGATTTAAAAT
1 AAATAATATATAAAACAATTTAAAATAAATAATATA-AAA-CGA-TTGAAAT
* * * *
61971358 AAATAACATATAAGACAATTTAAAAT-AAT-ATATAAAAGGCTTGAAAT
1 AAATAATATATAAAACAATTTAAAATAAATAATATAAAACGATTGAAAT
* * *
61971405 AAATAATATGTAAAAAGAAGTTTAAAATAAATAATAGAAAA
1 AAATAATATAT-AAAACAA-TTTAAAATAAATAATATAAAA
61971446 TCAGTTTTAA
Statistics
Matches: 113, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
47 15 0.13
48 6 0.05
49 11 0.10
50 39 0.35
51 13 0.12
52 28 0.25
53 1 0.01
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.27
Consensus pattern (49 bp):
AAATAATATATAAAACAATTTAAAATAAATAATATAAAACGATTGAAAT
Found at i:61971445 original size:25 final size:24
Alignment explanation
Indices: 61971325--61971462 Score: 86
Period size: 26 Copynumber: 5.5 Consensus size: 24
61971315 GTAAAACAAA
*
61971325 TTAAAATAAATAATATACAAAGCGAT
1 TTAAAATAAATAATATA-AAAGAG-T
* * *
61971351 TTAAAATAAATAACATATAAGACAAT
1 TTAAAATAAAT-A-ATATAAAAGAGT
*
61971377 TTAAAAT-AAT-ATATAAAAG-GC
1 TTAAAATAAATAATATAAAAGAGT
*
61971398 TTGAAATAAATAATATGTAAAAAGAAGT
1 TTAAAATAAATAATA--T-AAAAG-AGT
* *
61971426 TTAAAATAAATAATAGAAAATCAGTT
1 TTAAAATAAATAATATAAAA-GAG-T
61971452 TTAAAA-AAATA
1 TTAAAATAAATA
61971463 GATTATATAT
Statistics
Matches: 88, Mismatches: 13, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
21 6 0.07
22 10 0.11
23 3 0.03
25 15 0.17
26 31 0.35
27 3 0.03
28 20 0.23
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.28
Consensus pattern (24 bp):
TTAAAATAAATAATATAAAAGAGT
Found at i:61971555 original size:25 final size:27
Alignment explanation
Indices: 61971493--61971546 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
61971483 AATACAAAAT
* *
61971493 AATAAATAATATATATAACAGTTTAAA
1 AATAAATAATATATATAAAAATTTAAA
61971520 AATAAATAATATATA-AAAAATTTAAA
1 AATAAATAATATATATAAAAATTTAAA
61971546 A
1 A
61971547 TGGATAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
AATAAATAATATATATAAAAATTTAAA
Found at i:61973266 original size:44 final size:44
Alignment explanation
Indices: 61973103--61973388 Score: 166
Period size: 45 Copynumber: 6.4 Consensus size: 44
61973093 ACTCTGCTGT
* * ** * *
61973103 AACTTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATT-GTAGCTTCAATCTGCTCCAATGC
* * * * ** *
61973148 AACTTTAGAGAGATAAGGTTTGGGTA-TTTTTATCCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATT--GTAGCTTCAAT-CTGCTCCAATGC
* * *
61973194 AACTTCAGGGAGATAAGGATTGTGGCTTCGATCTGCTCCAATGT
1 AACTTCAGGGAGATAAGGATTGTAGCTTCAATCTGCTCCAATGC
* * ** *
61973238 AATTTCAGGGAG--AAGAGATTTGTAGCTTCAATCTACTCCGCTGG
1 AACTTCAGGGAGATAAG-GA-TTGTAGCTTCAATCTGCTCCAATGC
* * * * *
61973282 AACTTCAAGGAGATAAGAATTGGTAACTTCAACCTGCTCCATTGC
1 AACTTCAGGGAGATAAGGATT-GTAGCTTCAATCTGCTCCAATGC
* * * ** *
61973327 AACTTCAAGGAGATAAGGTTTGT-GTATTTTTATCCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATTGTAG--CTTCAAT-CTGCTCCAATGC
61973373 AACTTCAGGGAGATAA
1 AACTTCAGGGAGATAA
61973389 TGTAACACCC
Statistics
Matches: 188, Mismatches: 42, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
42 3 0.02
43 2 0.01
44 56 0.30
45 64 0.34
46 63 0.34
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGGATTGTAGCTTCAATCTGCTCCAATGC
Found at i:61973317 original size:179 final size:179
Alignment explanation
Indices: 61973049--61973388 Score: 567
Period size: 179 Copynumber: 1.9 Consensus size: 179
61973039 GTCTCGGTCC
** * *
61973049 GCTCCAATGTAATTCTAGGGAGAAGAGACTTGTAGCTTTGATCTACTCTGCTGTAACTTCAAGGA
1 GCTCCAATGTAATTCTAGGGAGAAGAGACTTGTAGCTTCAATCTACTCCGCTGGAACTTCAAGGA
* *
61973114 GATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTT-TAGAGAGATAAGGTTTGGGTATTTT
66 GATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAAG-GAGATAAGGTTTGGGTATTTT
61973178 TATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGCTTCGATCT
130 TATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGCTTCGATCT
*
61973228 GCTCCAATGTAATT-TCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCCGCTGGAACTTCAAGG
1 GCTCCAATGTAATTCT-AGGGAGAAGAGACTTGTAGCTTCAATCTACTCCGCTGGAACTTCAAGG
* *
61973292 AGATAAGAATTGGTAACTTCAACCTGCTCCATTGCAACTTCAAGGAGATAAGGTTTGTGTATTTT
65 AGATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGGGTATTTT
61973357 TATCCTGCTCCACTGCAACTTCAGGGAGATAA
130 TATCCTGCTCCACTGCAACTTCAGGGAGATAA
61973389 TGTAACACCC
Statistics
Matches: 150, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
178 1 0.01
179 147 0.98
180 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (179 bp):
GCTCCAATGTAATTCTAGGGAGAAGAGACTTGTAGCTTCAATCTACTCCGCTGGAACTTCAAGGA
GATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGGGTATTTTT
ATCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGCTTCGATCT
Found at i:61973377 original size:46 final size:46
Alignment explanation
Indices: 61973103--61973388 Score: 223
Period size: 46 Copynumber: 6.3 Consensus size: 46
61973093 ACTCTGCTGT
* *
61973103 AACTTCAAGGAGATAAGAATTG-GTAATTTCAACCTGCTCCACTGC
1 AACTTCAAGGAGATAAGGATTGTGTAATTTCATCCTGCTCCACTGC
* * * * *
61973148 AACTT-TAGAGAGATAAGGTTTGGGTATTTTTATCCTGCTCCACTGC
1 AACTTCAAG-GAGATAAGGATTGTGTAATTTCATCCTGCTCCACTGC
* ** * *
61973194 AACTTCAGGGAGATAAGGATTGTG--GCTTCGAT-CTGCTCCAATGT
1 AACTTCAAGGAGATAAGGATTGTGTAATTTC-ATCCTGCTCCACTGC
* * ** * * *
61973238 AATTTC-AGG-GAGAAGAGATT-TGTAGCTTCAAT-CTACTCCGCTGG
1 AACTTCAAGGAGATAAG-GATTGTGTAATTTC-ATCCTGCTCCACTGC
* * * *
61973282 AACTTCAAGGAGATAAGAATTG-GTAACTTCAACCTGCTCCATTGC
1 AACTTCAAGGAGATAAGGATTGTGTAATTTCATCCTGCTCCACTGC
* * *
61973327 AACTTCAAGGAGATAAGGTTTGTGTATTTTTATCCTGCTCCACTGC
1 AACTTCAAGGAGATAAGGATTGTGTAATTTCATCCTGCTCCACTGC
*
61973373 AACTTCAGGGAGATAA
1 AACTTCAAGGAGATAA
61973389 TGTAACACCC
Statistics
Matches: 189, Mismatches: 40, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
42 7 0.04
43 6 0.03
44 40 0.21
45 59 0.31
46 76 0.40
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (46 bp):
AACTTCAAGGAGATAAGGATTGTGTAATTTCATCCTGCTCCACTGC
Found at i:61975142 original size:16 final size:16
Alignment explanation
Indices: 61975121--61975152 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61975111 GTTTTGTTGC
*
61975121 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
61975137 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
61975153 CTTTCAATCA
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:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:61975536 original size:51 final size:50
Alignment explanation
Indices: 61975376--61975524 Score: 187
Period size: 51 Copynumber: 3.0 Consensus size: 50
61975366 GATACCAATT
* *
61975376 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGATCATCACTATTC-ATA
* * *
61975427 CACGTAGTAGCCTGCATATAGTACTATACACGTGATCGA--AGCTATTCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGATC-ATCA-CTATTCA-TA
*
61975478 CTCATAGTAGCCTGCACATAGTACTACACACGTGATCATCACT-TTCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGATCATCACTATTCA
61975525 CTTTCACATA
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
50 7 0.08
51 75 0.89
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGATCATCACTATTCATA
Found at i:61988272 original size:90 final size:90
Alignment explanation
Indices: 61988119--61988297 Score: 331
Period size: 90 Copynumber: 2.0 Consensus size: 90
61988109 AGGCCCACTC
* *
61988119 GTCCCGCGATAACAATATGCTACATCCCGTAAGTTAGGATGCGACATTTGAACCCTCGAGAATAA
1 GTCCCGCGATAACAATATGCCACATCCCATAAGTTAGGATGCGACATTTGAACCCTCGAGAATAA
61988184 GCTTGCCTTTGATTTTTATTTAAAT
66 GCTTGCCTTTGATTTTTATTTAAAT
*
61988209 GTCCCGTGATAACAATATGCCACATCCCATAAGTTAGGATGCGACATTTGAACCCTCGAGAATAA
1 GTCCCGCGATAACAATATGCCACATCCCATAAGTTAGGATGCGACATTTGAACCCTCGAGAATAA
61988274 GCTTGCCTTTGATTTTTATTTAAA
66 GCTTGCCTTTGATTTTTATTTAAA
61988298 ACTTAGGTAT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (90 bp):
GTCCCGCGATAACAATATGCCACATCCCATAAGTTAGGATGCGACATTTGAACCCTCGAGAATAA
GCTTGCCTTTGATTTTTATTTAAAT
Found at i:61988833 original size:271 final size:271
Alignment explanation
Indices: 61988346--61988886 Score: 924
Period size: 271 Copynumber: 2.0 Consensus size: 271
61988336 TAGATTTAAT
* * *
61988346 GAGAAAATAGAAACCCCGTAAATTAGGGTAAGACTTCTCGAATTTCCAAAAATAAAATATTACCT
1 GAGAAAATAGAAACCCCATAAATTAGGGTAAGACTTCTCAAATTTCCAAAAATAAAACATTACCT
*
61988411 TATTTTAAAATATTTTTTGAATAATAGCGATTACAAAACCTTAACGATGCGTGCTATTTAGTTGA
66 TATTTTAAAATATTTTTTGAATAATAGCGATTACAAAACCTAAACGATGCGTGCTATTTAGTTGA
*
61988476 AATATAATAAAATGACCCATTATGGATAAAGGAAAAAAAAATTAAACGCGACCTTTGAAGTGATT
131 AATATAATAAAATGACCCATTATGGATAAAGGAAAAAAAAATTAAACACGACCTTTGAAGTGATT
*
61988541 TTAAGGAAATGTAATGGAATAATAACATACAATATGGAGTAATAATTTACGAATAAAATGTTTCA
196 TTAAGGAAATGTAACGGAATAATAACATACAATATGGAGTAATAATTTACGAATAAAATGTTTCA
61988606 CTAATGAATCC
261 CTAATGAATCC
* * * *
61988617 GAGAAAATAGAAACCCTATAAATTAGGGTATGACTTCTCAAATTTCCAAAAA-ACGACACATTTC
1 GAGAAAATAGAAACCCCATAAATTAGGGTAAGACTTCTCAAATTTCCAAAAATA--AAACATTAC
*
61988681 CTTATTTTAAAATTTTTTTTGAATAATAGCGATTACAAAACCTAAACGATGCGTGCTATTTAGTT
64 CTTATTTTAAAATATTTTTTGAATAATAGCGATTACAAAACCTAAACGATGCGTGCTATTTAGTT
**
61988746 GAAATATAATAAAATGGTCCATTATGGATAAAGG-AAAAAAAATTAAACACGACCTTTGAAGTGA
129 GAAATATAATAAAATGACCCATTATGGATAAAGGAAAAAAAAATTAAACACGACCTTTGAAGTGA
*
61988810 TTTTAATGAAATGTAACGGAATAATAACATACAATATGGAGTAATAATTTACGAATAAAATGTTT
194 TTTTAAGGAAATGTAACGGAATAATAACATACAATATGGAGTAATAATTTACGAATAAAATGTTT
61988875 CACTAATGAATC
259 CACTAATGAATC
61988887 ACAATAACAT
Statistics
Matches: 254, Mismatches: 14, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
270 1 0.00
271 152 0.60
272 101 0.40
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (271 bp):
GAGAAAATAGAAACCCCATAAATTAGGGTAAGACTTCTCAAATTTCCAAAAATAAAACATTACCT
TATTTTAAAATATTTTTTGAATAATAGCGATTACAAAACCTAAACGATGCGTGCTATTTAGTTGA
AATATAATAAAATGACCCATTATGGATAAAGGAAAAAAAAATTAAACACGACCTTTGAAGTGATT
TTAAGGAAATGTAACGGAATAATAACATACAATATGGAGTAATAATTTACGAATAAAATGTTTCA
CTAATGAATCC
Found at i:61989029 original size:24 final size:24
Alignment explanation
Indices: 61988995--61989179 Score: 90
Period size: 24 Copynumber: 7.4 Consensus size: 24
61988985 AAGCAAAACA
* *
61988995 AAATAATATATAGAACAATTTGAAGT
1 AAATAATATA-A-AACAATCTAAAGT
61989021 AAATAATATAAAACAATCTAAAGT
1 AAATAATATAAAACAATCTAAAGT
* **** * *
61989045 AAATAATGTCACTTTAATATCAATATT
1 AAATAATAT-AAAACAATCT-AA-AGT
* * * *
61989072 AACAATAAAAGAAAACGAAAC-AAAAT
1 -A-AATAATATAAAAC-AATCTAAAGT
* * *
61989098 -AAT-ATATAGAACAATTTGAAGT
1 AAATAATATAAAACAATCTAAAGT
61989120 AAATAATATAAAACAATCTAAAGT
1 AAATAATATAAAACAATCTAAAGT
*
61989144 AAATAATATGTAAAACAAAT-TAAAAT
1 AAATAATA--TAAAAC-AATCTAAAGT
61989170 AAATAATATA
1 AAATAATATA
61989180 CTAAGCGATT
Statistics
Matches: 117, Mismatches: 30, Indels: 26
0.68 0.17 0.15
Matches are distributed among these distances:
21 2 0.02
22 9 0.08
23 6 0.05
24 45 0.38
25 6 0.05
26 33 0.28
27 7 0.06
28 2 0.02
29 7 0.06
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.27
Consensus pattern (24 bp):
AAATAATATAAAACAATCTAAAGT
Found at i:61989126 original size:99 final size:99
Alignment explanation
Indices: 61988955--61989150 Score: 365
Period size: 99 Copynumber: 2.0 Consensus size: 99
61988945 CAACGCTTGC
* *
61988955 CACTTTAATATCAATATTAACAATCAAAGAAAGCAAAACAAAATAATATATAGAACAATTTGAAG
1 CACTTTAATATCAATATTAACAATAAAAGAAAACAAAACAAAATAATATATAGAACAATTTGAAG
61989020 TAAATAATATAAAACAATCTAAAGTAAATAATGT
66 TAAATAATATAAAACAATCTAAAGTAAATAATGT
*
61989054 CACTTTAATATCAATATTAACAATAAAAGAAAACGAAACAAAATAATATATAGAACAATTTGAAG
1 CACTTTAATATCAATATTAACAATAAAAGAAAACAAAACAAAATAATATATAGAACAATTTGAAG
61989119 TAAATAATATAAAACAATCTAAAGTAAATAAT
66 TAAATAATATAAAACAATCTAAAGTAAATAAT
61989151 ATGTAAAACA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 94 1.00
ACGTcount: A:0.58, C:0.10, G:0.07, T:0.26
Consensus pattern (99 bp):
CACTTTAATATCAATATTAACAATAAAAGAAAACAAAACAAAATAATATATAGAACAATTTGAAG
TAAATAATATAAAACAATCTAAAGTAAATAATGT
Found at i:61989219 original size:52 final size:50
Alignment explanation
Indices: 61989094--61989283 Score: 145
Period size: 50 Copynumber: 3.8 Consensus size: 50
61989084 AAACGAAACA
* * *
61989094 AAATAATATAT-AGAACAATTTGAAGTAAATAATATAAAACAATCTAAAGT
1 AAATAATATATAAG-ACAATTTAAAATAAATAATATAAAACAATCTAAAAT
* * * * * *
61989144 AAATAATATGTAAAACAAATTAAAATAAATAATATACTAAGCGATTTAAAAT
1 AAATAATATATAAGACAATTTAAAATAAATAATATA--AAACAATCTAAAAT
* * ***
61989196 AAATAACATATAAGACAATTTAAAAT-AAT-ATATTAAAGGCT-TAAAAT
1 AAATAATATATAAGACAATTTAAAATAAATAATATAAAACAATCTAAAAT
* * * *
61989243 AAATAATATGTAAAAAGAAGTTTAAAATAAATAATAGAAAA
1 AAATAATATAT-AAGACAA-TTTAAAATAAATAATATAAAA
61989284 TCAGTTTTAA
Statistics
Matches: 110, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
47 15 0.14
48 9 0.08
49 8 0.07
50 36 0.33
51 10 0.09
52 32 0.29
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (50 bp):
AAATAATATATAAGACAATTTAAAATAAATAATATAAAACAATCTAAAAT
Found at i:61989220 original size:26 final size:26
Alignment explanation
Indices: 61989094--61989278 Score: 138
Period size: 26 Copynumber: 7.3 Consensus size: 26
61989084 AAACGAAACA
* *
61989094 AAATAATATAT-AGAACAATTTGAAGT
1 AAATAATATATAAG-ACAATTTAAAAT
* *
61989120 AAATAATATA-AA-ACAATCTAAAGT
1 AAATAATATATAAGACAATTTAAAAT
* * *
61989144 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATATAAGACAATTTAAAAT
*
61989170 AAATAATATACTAAG-CGATTTAAAAT
1 AAATAATATA-TAAGACAATTTAAAAT
*
61989196 AAATAACATATAAGACAATTTAAAAT
1 AAATAATATATAAGACAATTTAAAAT
*
61989222 -AAT-ATAT-TAAAGGC---TTAAAAT
1 AAATAATATAT-AAGACAATTTAAAAT
* * *
61989243 AAATAATATGTAAAAAGAAGTTTAAAAT
1 AAATAATATAT-AAGACAA-TTTAAAAT
61989271 AAATAATA
1 AAATAATA
61989279 GAAAATCAGT
Statistics
Matches: 129, Mismatches: 17, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
21 7 0.05
22 3 0.02
23 5 0.04
24 30 0.23
25 9 0.07
26 57 0.44
27 3 0.02
28 15 0.12
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATAATATATAAGACAATTTAAAAT
Found at i:61989246 original size:25 final size:27
Alignment explanation
Indices: 61989218--61989360 Score: 100
Period size: 28 Copynumber: 5.3 Consensus size: 27
61989208 AGACAATTTA
*
61989218 AAATAATATAT-TAAAG-GCTTAAAAT
1 AAATAATATATAAAAAGAGCTTAAAAT
* *
61989243 AAATAATATGTAAAAAGAAGTTTAAAAT
1 AAATAATATATAAAAAG-AGCTTAAAAT
* * **
61989271 AAATAATAGA-AAATCAG-TTTTAAAA-
1 AAATAATATATAAA-AAGAGCTTAAAAT
*
61989296 AAATAGATTATATATAAAAG-GCTTGAAAT
1 AAATA-A-TATATA-AAAAGAGCTTAAAAT
* *
61989325 AAATAATATGTAAAAAGAAGTTTAAAAT
1 AAATAATATATAAAAAG-AGCTTAAAAT
61989353 AAATAATA
1 AAATAATA
61989361 GAAAATCAGT
Statistics
Matches: 92, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
25 15 0.16
26 17 0.18
27 11 0.12
28 42 0.46
29 7 0.08
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATAATATATAAAAAGAGCTTAAAAT
Found at i:61989268 original size:28 final size:28
Alignment explanation
Indices: 61989236--61989360 Score: 127
Period size: 28 Copynumber: 4.5 Consensus size: 28
61989226 TATTAAAGGC
61989236 TTAAAATAAATAATATGTAAAAAGAAGT
1 TTAAAATAAATAATATGTAAAAAGAAGT
**
61989264 TTAAAATAAATAATA-G--AAAATCAGTT
1 TTAAAATAAATAATATGTAAAAAGAAG-T
* *
61989290 TTAAAA-AAATAGATTATATATAAAAG--GC
1 TTAAAATAAATA-A-TATGTA-AAAAGAAGT
*
61989318 TTGAAATAAATAATATGTAAAAAGAAGT
1 TTAAAATAAATAATATGTAAAAAGAAGT
61989346 TTAAAATAAATAATA
1 TTAAAATAAATAATA
61989361 GAAAATCAGT
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
25 11 0.14
26 13 0.17
27 8 0.10
28 36 0.46
29 6 0.08
31 4 0.05
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.30
Consensus pattern (28 bp):
TTAAAATAAATAATATGTAAAAAGAAGT
Found at i:61989310 original size:82 final size:82
Alignment explanation
Indices: 61989223--61989397 Score: 323
Period size: 82 Copynumber: 2.1 Consensus size: 82
61989213 ATTTAAAATA
61989223 ATATATTAAAGGCTTAAAATAAATAATATGTAAAAAGAAGTTTAAAATAAATAATAGAAAATCAG
1 ATATATTAAAGGCTTAAAATAAATAATATGTAAAAAGAAGTTTAAAATAAATAATAGAAAATCAG
61989288 TTTTAAAAAAATAGATT
66 TTTTAAAAAAATAGATT
* *
61989305 ATATATAAAAGGCTTGAAATAAATAATATGTAAAAAGAAGTTTAAAATAAATAATAGAAAATCAG
1 ATATATTAAAGGCTTAAAATAAATAATATGTAAAAAGAAGTTTAAAATAAATAATAGAAAATCAG
61989370 TTTTAAAAAAATAGATT
66 TTTTAAAAAAATAGATT
61989387 ATATATATAAA
1 ATATAT-TAAA
61989398 AAGACAATAC
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 86 0.97
83 3 0.03
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (82 bp):
ATATATTAAAGGCTTAAAATAAATAATATGTAAAAAGAAGTTTAAAATAAATAATAGAAAATCAG
TTTTAAAAAAATAGATT
Found at i:61989365 original size:25 final size:25
Alignment explanation
Indices: 61989236--61989382 Score: 93
Period size: 28 Copynumber: 5.5 Consensus size: 25
61989226 TATTAAAGGC
61989236 TTAAAATAAATAATATGTAAAAAGAAGT
1 TTAAAATAAATAATA-G--AAAAGAAGT
**
61989264 TTAAAATAAATAATAGAAAATCAGTT
1 TTAAAATAAATAATAGAAAAGAAG-T
* *
61989290 TTAAAA-AAATAGATTATATATAA-AAGGC
1 TTAAAATAAATA-A-TAGA-A-AAGAA-GT
*
61989318 TTGAAATAAATAATATGTAAAAAGAAGT
1 TTAAAATAAATAATA-G--AAAAGAAGT
**
61989346 TTAAAATAAATAATAGAAAATCAGTT
1 TTAAAATAAATAATAGAAAAGAAG-T
61989372 TTAAAA-AAATA
1 TTAAAATAAATA
61989383 GATTATATAT
Statistics
Matches: 96, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
25 22 0.23
26 15 0.16
27 7 0.07
28 40 0.42
29 11 0.11
30 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (25 bp):
TTAAAATAAATAATAGAAAAGAAGT
Found at i:61993443 original size:34 final size:34
Alignment explanation
Indices: 61993404--61993477 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
61993394 GTTGCCTTCA
61993404 ATGAAATAAGCATTGAATTGGCAGATCACGATAC
1 ATGAAATAAGCATTGAATTGGCAGATCACGATAC
61993438 ATGAAATAAGCATTGAATTGGCAGATCACGATAC
1 ATGAAATAAGCATTGAATTGGCAGATCACGATAC
61993472 ATGAAA
1 ATGAAA
61993478 ATTTCAAACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (34 bp):
ATGAAATAAGCATTGAATTGGCAGATCACGATAC
Found at i:62006197 original size:27 final size:27
Alignment explanation
Indices: 62006167--62006237 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
62006157 TAAATTTGTG
* * *
62006167 AAATTACTAAAATACCCTCGATGGATA
1 AAATTACTGAAATACCCTCAAAGGATA
* * *
62006194 AAATTAATGAAATAACCTCAAAGGGTA
1 AAATTACTGAAATACCCTCAAAGGATA
*
62006221 AAATGACTGAAATACCC
1 AAATTACTGAAATACCC
62006238 CTATAGGGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.23
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAAAGGATA
Found at i:62006245 original size:27 final size:27
Alignment explanation
Indices: 62006215--62006444 Score: 198
Period size: 27 Copynumber: 8.5 Consensus size: 27
62006205 ATAACCTCAA
*
62006215 AGGGTAAAATGACTGAAATACCCCTAT
1 AGGGTAAAATGACTGTAATACCCCTAT
* * * *
62006242 AGGGTAAAATGACCGTAATGCTCCTGT
1 AGGGTAAAATGACTGTAATACCCCTAT
* * *
62006269 AGGATAAAATGA-TCGAAATACCCCCAT
1 AGGGTAAAATGACT-GTAATACCCCTAT
* * *
62006296 AGGGTAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACTGTAATACCCCTAT
* * * *
62006323 AGGATAAAATAACCGTAATACCCTTAT
1 AGGGTAAAATGACTGTAATACCCCTAT
* * *
62006350 AGGGTAAAATGA-TCCTAATACCCTTGT
1 AGGGTAAAATGACT-GTAATACCCCTAT
*
62006377 AGGGTAAAATGACCGTAATA-CCCTCAT
1 AGGGTAAAATGACTGTAATACCCCT-AT
* * *
62006404 -GAAGTAAAATGACTGTAATGCCCCTGT
1 AG-GGTAAAATGACTGTAATACCCCTAT
62006431 AGGGTAAAATGACT
1 AGGGTAAAATGACT
62006445 ATTTTGCCCC
Statistics
Matches: 158, Mismatches: 37, Indels: 16
0.75 0.18 0.08
Matches are distributed among these distances:
26 4 0.03
27 149 0.94
28 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATGACTGTAATACCCCTAT
Found at i:62006277 original size:54 final size:54
Alignment explanation
Indices: 62006219--62006444 Score: 262
Period size: 54 Copynumber: 4.2 Consensus size: 54
62006209 CCTCAAAGGG
*
62006219 TAAAATGACTGAAATACCCCTATAGGGTAAAATGACCGTAATGCTCCTGTAGGA
1 TAAAATGACTGAAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGA
*
62006273 TAAAATGA-TCGAAATACCCCCATAGGGTAAAATGACCGTAATGCCCCTGTAGGA
1 TAAAATGACT-GAAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGA
* * * * * * *
62006327 TAAAATAACCGTAATACCCTTATAGGGTAAAATGATCC-TAATACCCTTGTAGGG
1 TAAAATGACTGAAATACCCCTATAGGGTAAAATGA-CCGTAATGCCCCTGTAGGA
* * * * *
62006381 TAAAATGACCGTAATA-CCCTCAT-GAAGTAAAATGACTGTAATGCCCCTGTAGGG
1 TAAAATGACTGAAATACCCCT-ATAG-GGTAAAATGACCGTAATGCCCCTGTAGGA
62006435 TAAAATGACT
1 TAAAATGACT
62006445 ATTTTGCCCC
Statistics
Matches: 149, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
53 6 0.04
54 141 0.95
55 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (54 bp):
TAAAATGACTGAAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTGTAGGA
Found at i:62006287 original size:81 final size:80
Alignment explanation
Indices: 62006189--62006442 Score: 253
Period size: 81 Copynumber: 3.1 Consensus size: 80
62006179 TACCCTCGAT
* * * * *
62006189 GGATAAAATTAAT-GAAATAACCTCAAAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAATG
1 GGATAAAA-TGATCGAAATACCCTCATAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATG
62006253 ACCGTAATGCTCCTGTA
65 ACCGTAATGC-CCTGTA
* * * * *
62006270 GGATAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGTAATGCCCCTGTAGGATAAAATAA
1 GGATAAAATGATCGAAATACCCTCATAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA
* *
62006335 CCGTAATACCCTTATA
66 CCGTAATGCCC-TGTA
* ** ** *
62006351 GGGTAAAATGATCCTAATACCCTTGTAGGGTAAAATGACCGTAATA-CCCTCAT-GAAGTAAAAT
1 GGATAAAATGATCGAAATACCCTCATAGGGTAAAATGACCGTAATACCCCT-ATAG-GGTAAAAT
*
62006414 GACTGTAATGCCCCTGTA
64 GACCGTAATG-CCCTGTA
*
62006432 GGGTAAAATGA
1 GGATAAAATGA
62006443 CTATTTTGCC
Statistics
Matches: 142, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
80 10 0.07
81 129 0.91
82 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (80 bp):
GGATAAAATGATCGAAATACCCTCATAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA
CCGTAATGCCCTGTA
Found at i:62006634 original size:27 final size:26
Alignment explanation
Indices: 62006591--62006656 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
62006581 GGAAGTATTG
*
62006591 TACTGGTGGCTCTGCCACA-ATCACTGT
1 TACTGGTGGCT-TGCCACATAT-ACTAT
62006618 TACTGGTGGCTTGGCCACATATACTAT
1 TACTGGTGGCTT-GCCACATATACTAT
*
62006645 TACTGGTAGCTT
1 TACTGGTGGCTT
62006657 TCCTGCGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.91
28 2 0.06
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (26 bp):
TACTGGTGGCTTGCCACATATACTAT
Found at i:62006681 original size:26 final size:26
Alignment explanation
Indices: 62006638--62006691 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
62006628 TTGGCCACAT
*
62006638 ATACTATTACTGGTAGCTTTCCTGCG
1 ATACTATTACTGGCAGCTTTCCTGCG
** *
62006664 ATACTATTGTTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTCCTGCG
62006690 AT
1 AT
62006692 GCTACTGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTCCTGCG
Found at i:62006703 original size:26 final size:26
Alignment explanation
Indices: 62006652--62006703 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
62006642 TATTACTGGT
* *
62006652 AGCTTTCCTGCGATACTATTGTTGGC
1 AGCTTTCCTGCGATACTACTGATGGC
* *
62006678 AGCTTTGCTGCGATGCTACTGATGGC
1 AGCTTTCCTGCGATACTACTGATGGC
62006704 TGTGTGCCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (26 bp):
AGCTTTCCTGCGATACTACTGATGGC
Found at i:62006742 original size:32 final size:32
Alignment explanation
Indices: 62006691--62006756 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
62006681 TTTGCTGCGA
*
62006691 TGCTACTGATGGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
* * *
62006723 TGCTCCTGATGGCTTTGTGCCAATCATATTAC
1 TGCTACTGATGGCTGTGTGCCAATCATATCAC
62006755 TG
1 TG
62006757 TATTTATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (32 bp):
TGCTACTGATGGCTGTGTGCCAATCATATCAC
Found at i:62011267 original size:12 final size:11
Alignment explanation
Indices: 62011250--62011283 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
62011240 ATGCAAGCCA
62011250 ATTTTATTTTAT
1 ATTTTATTTT-T
62011262 ATTTTATATTTT
1 ATTTTAT-TTTT
62011274 ATTTTATTTT
1 ATTTTATTTT
62011284 CTTTATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:62011290 original size:9 final size:9
Alignment explanation
Indices: 62011276--62011304 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
62011266 TATATTTTAT
62011276 TTTATTTTC
1 TTTATTTTC
62011285 TTTATTTTC
1 TTTATTTTC
62011294 TTTATTTTC
1 TTTATTTTC
62011303 TT
1 TT
62011305 GCATGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTC
Found at i:62011290 original size:19 final size:19
Alignment explanation
Indices: 62011250--62011304 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
62011240 ATGCAAGCCA
*
62011250 ATTTTATTTTATATTT-TAT
1 ATTTTATTTTAT-TTTCTTT
62011269 ATTTTATTTTATTTTCTTT
1 ATTTTATTTTATTTTCTTT
*
62011288 ATTTT-CTTTATTTTCTT
1 ATTTTATTTTATTTTCTT
62011305 GCATGTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 14 0.42
19 19 0.58
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (19 bp):
ATTTTATTTTATTTTCTTT
Found at i:62013460 original size:107 final size:108
Alignment explanation
Indices: 62013320--62013521 Score: 255
Period size: 107 Copynumber: 1.9 Consensus size: 108
62013310 ACTAGAATTA
* *
62013320 AATAAAAAAATTAAGAGTGTGTTGGGCTGAGTAACCGAGGTGGGGTACTTGGGGTGTCATTC-CA
1 AATAAAAAAATTAAGAGTGTGTTGGGCTAAGTAACCGAGGTGAGGTACTTGGGGTGTCA-TCGCA
62013384 CTTCGCATCAAAAGGGCCAAAACATTCTTAACCAAAAAATATAT
65 CTTCGCATCAAAAGGGCCAAAACATTCTTAACCAAAAAATATAT
* * * * * * * **
62013428 AATAATAAAA-TAGGAGTGTGTTGGGTTAAGTAACTGGGGTGAGGTGCTTGGGTTGTCATCGCTT
1 AATAAAAAAATTAAGAGTGTGTTGGGCTAAGTAACCGAGGTGAGGTACTTGGGGTGTCATCGCAC
* * *
62013492 TTCGCATCAAAATGGTCAATACATTCTTAA
66 TTCGCATCAAAAGGGCCAAAACATTCTTAA
62013522 GAAAAAACTA
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
106 2 0.03
107 68 0.86
108 9 0.11
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (108 bp):
AATAAAAAAATTAAGAGTGTGTTGGGCTAAGTAACCGAGGTGAGGTACTTGGGGTGTCATCGCAC
TTCGCATCAAAAGGGCCAAAACATTCTTAACCAAAAAATATAT
Found at i:62014127 original size:12 final size:12
Alignment explanation
Indices: 62014112--62014140 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
62014102 AATTCAAATT
62014112 TTATTTTTAGGA
1 TTATTTTTAGGA
62014124 TTATTTTTAGGA
1 TTATTTTTAGGA
62014136 TTATT
1 TTATT
62014141 ATGATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (12 bp):
TTATTTTTAGGA
Found at i:62024013 original size:51 final size:51
Alignment explanation
Indices: 62023871--62024013 Score: 119
Period size: 51 Copynumber: 2.8 Consensus size: 51
62023861 TATATATGGC
** * * * * *
62023871 GTAAGACCATAAATGAATGATGCTATGGCAGTCTGGTATGAGATACGTAGT
1 GTAAGACCATAGGTGAAAGATGCTATGGCAGACAGGTATAAGATAAGTAGT
* * * * * * *
62023922 GTAAGACCAT-GGATGAAAGACG-TCGTGGCAGAAAGATATAAGGTAATTGGT
1 GTAAGACCATAGG-TGAAAGATGCT-ATGGCAGACAGGTATAAGATAAGTAGT
*
62023973 GTAAGACCATAGGTGAAAGATGCTATGGCAGCCAGGTATAA
1 GTAAGACCATAGGTGAAAGATGCTATGGCAGACAGGTATAA
62024014 TGAGAAAGAC
Statistics
Matches: 69, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
50 1 0.01
51 65 0.94
52 3 0.04
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (51 bp):
GTAAGACCATAGGTGAAAGATGCTATGGCAGACAGGTATAAGATAAGTAGT
Found at i:62030530 original size:12 final size:12
Alignment explanation
Indices: 62030513--62030542 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62030503 TCAGTGAGTT
62030513 ACATGGCCTAAC
1 ACATGGCCTAAC
*
62030525 ACATGGCCTAGC
1 ACATGGCCTAAC
62030537 ACATGG
1 ACATGG
62030543 GCATGTGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (12 bp):
ACATGGCCTAAC
Found at i:62043574 original size:23 final size:22
Alignment explanation
Indices: 62043544--62043590 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
62043534 AATATATTAA
62043544 AAGCAAAT-TCGAAAATAATATT
1 AAGCAAATAT-GAAAATAATATT
*
62043566 AAGCTAAATATTAAAATAATATT
1 AAGC-AAATATGAAAATAATATT
62043589 AA
1 AA
62043591 AAACAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (22 bp):
AAGCAAATATGAAAATAATATT
Found at i:62045638 original size:44 final size:43
Alignment explanation
Indices: 62045589--62045779 Score: 131
Period size: 44 Copynumber: 4.1 Consensus size: 43
62045579 TAACTTCAAA
*
62045589 GAGATAAGATCCTTTA-TTTTAAT-TCGCTCCACTGTAATCTCAGG
1 GAGATAAGAT--TTTAGTTTCAATCT-GCTCCACTGTAATCTCAGG
* * * *
62045633 GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGG
1 GAGATAAGATT-TTAGTTTCAATCTGCTCCACTGTAATCTCAGG
*
62045677 GAGATAAGATTTCTAGTTTCAATCTGATACGATCTACTCTACTGTAA-CTTCAGA
1 GAGATAAGATTT-TAGTTTCAATC---T--G--CT-C-C-ACTGTAATC-TCAGG
62045731 GAGATAAGATCCTTTA-TTT-AATCTGCTCCACTGTAATCTCAGG
1 GAGATAAGAT--TTTAGTTTCAATCTGCTCCACTGTAATCTCAGG
62045774 GAGATA
1 GAGATA
62045780 GTATTAGTAG
Statistics
Matches: 118, Mismatches: 11, Indels: 37
0.71 0.07 0.22
Matches are distributed among these distances:
42 1 0.01
43 19 0.16
44 54 0.46
45 2 0.02
46 2 0.02
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 2 0.02
52 1 0.01
53 6 0.05
54 23 0.19
55 2 0.02
56 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (43 bp):
GAGATAAGATTTTAGTTTCAATCTGCTCCACTGTAATCTCAGG
Found at i:62045672 original size:142 final size:142
Alignment explanation
Indices: 62045416--62045802 Score: 602
Period size: 142 Copynumber: 2.7 Consensus size: 142
62045406 GAGATAAGAC
* *
62045416 CTGATACGATCCT-CTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACT
1 CTGATACGAT-CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACT
* * * *
62045480 ATAATCTCAGGGAGATAGGATTACTGGCTTCAATCTACTCCGCTGTAATCTTAGAGAGATAAGAT
65 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGAT
*
62045545 TTCTGGATTCAAT
130 TTCTAGATTCAAT
*
62045558 CTGAT-CTGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATTCGCTCCACT
1 CTGATAC-GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACT
*
62045622 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
65 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGAT
*
62045687 TTCTAGTTTCAAT
130 TTCTAGATTCAAT
62045700 CTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTAA-TCTGCTCCACT
1 CTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTC-GCTCCACT
* * *
62045763 GTAATCTCAGGGAGATAGTATTAGTAGCTTCAGTCTGCTC
65 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTC
62045803 TACCACTGCC
Statistics
Matches: 227, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
140 2 0.01
141 53 0.23
142 171 0.75
143 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (142 bp):
CTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGATT
TCTAGATTCAAT
Found at i:62057431 original size:23 final size:22
Alignment explanation
Indices: 62057401--62057494 Score: 73
Period size: 23 Copynumber: 4.1 Consensus size: 22
62057391 AATATATTAA
62057401 AAGCAAAT-TCGAAAATAATATT
1 AAGCAAATAT-GAAAATAATATT
*
62057423 AAGCTAAATATTAAAATAATATT
1 AAGC-AAATATGAAAATAATATT
** **
62057446 AAAAACAATGAAAAAAATAATATT
1 AAGCA-AAT-ATGAAAATAATATT
* *
62057470 AAACTAAATATTAAAATAATATT
1 AAGC-AAATATGAAAATAATATT
62057493 AA
1 AA
62057495 AAACGATGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
22 5 0.08
23 34 0.58
24 19 0.32
25 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (22 bp):
AAGCAAATATGAAAATAATATT
Found at i:62057445 original size:47 final size:47
Alignment explanation
Indices: 62057412--62057504 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
62057402 AGCAAATTCG
*
62057412 AAAATAATATTAAGCTAAATATTAAAATAATATTAAAAACAATGAAA
1 AAAATAATATTAAACTAAATATTAAAATAATATTAAAAACAATGAAA
*
62057459 AAAATAATATTAAACTAAATATTAAAATAATATTAAAAACGATGAA
1 AAAATAATATTAAACTAAATATTAAAATAATATTAAAAACAATGAA
62057505 TATAGAAGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (47 bp):
AAAATAATATTAAACTAAATATTAAAATAATATTAAAAACAATGAAA
Found at i:62057467 original size:24 final size:24
Alignment explanation
Indices: 62057435--62057504 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
62057425 GCTAAATATT
62057435 AAAATAATATTAAAAACAATGAAA
1 AAAATAATATTAAAAACAATGAAA
* **
62057459 AAAATAATATTAAACTA-AAT-ATT
1 AAAATAATATTAAA-AACAATGAAA
*
62057482 AAAATAATATTAAAAACGATGAA
1 AAAATAATATTAAAAACAATGAA
62057505 TATAGAAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.03
23 17 0.46
24 18 0.49
25 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (24 bp):
AAAATAATATTAAAAACAATGAAA
Found at i:62057495 original size:23 final size:23
Alignment explanation
Indices: 62057412--62057495 Score: 107
Period size: 23 Copynumber: 3.6 Consensus size: 23
62057402 AGCAAATTCG
*
62057412 AAAATAATATTAAGCTAAATATT
1 AAAATAATATTAAACTAAATATT
* **
62057435 AAAATAATATTAAA-AACAATGAAA
1 AAAATAATATTAAACTA-AAT-ATT
62057459 AAAATAATATTAAACTAAATATT
1 AAAATAATATTAAACTAAATATT
62057482 AAAATAATATTAAA
1 AAAATAATATTAAA
62057496 AACGATGAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.02
23 31 0.61
24 18 0.35
25 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAATAATATTAAACTAAATATT
Found at i:62057497 original size:12 final size:11
Alignment explanation
Indices: 62057412--62057496 Score: 80
Period size: 12 Copynumber: 7.4 Consensus size: 11
62057402 AGCAAATTCG
62057412 AAAATAATATT
1 AAAATAATATT
**
62057423 AAGCTAAATATT
1 AAAAT-AATATT
62057435 AAAATAATATT
1 AAAATAATATT
* **
62057446 AAAAACAATGAAA
1 -AAAATAAT-ATT
62057459 AAAATAATATT
1 AAAATAATATT
*
62057470 AAACTAAATATT
1 AAAAT-AATATT
62057482 AAAATAATATT
1 AAAATAATATT
62057493 AAAA
1 AAAA
62057497 ACGATGAATA
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
11 24 0.41
12 33 0.57
13 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (11 bp):
AAAATAATATT
Found at i:62057948 original size:49 final size:49
Alignment explanation
Indices: 62057876--62057971 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
62057866 CTCAATCAGC
62057876 AATTTCACGCAAACAATAGAATAATAGCAATCAAGTGTAAAACGGTAGT
1 AATTTCACGCAAACAATAGAATAATAGCAATCAAGTGTAAAACGGTAGT
*
62057925 AATTTCACGCAATCAATAGAATAATAGCAATCAAGTGTAAAACGGTA
1 AATTTCACGCAAACAATAGAATAATAGCAATCAAGTGTAAAACGGTA
62057972 TCGCTTAACC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.23
Consensus pattern (49 bp):
AATTTCACGCAAACAATAGAATAATAGCAATCAAGTGTAAAACGGTAGT
Found at i:62058997 original size:24 final size:25
Alignment explanation
Indices: 62058960--62059012 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
62058950 GATTGTGGAC
62058960 ATTTTAAAATTTGGCTTTA-TTTTT
1 ATTTTAAAATTTGGCTTTATTTTTT
*
62058984 ATTTATAAAA-TTGGGTTTATTTTTT
1 ATTT-TAAAATTTGGCTTTATTTTTT
62059009 ATTT
1 ATTT
62059013 GCGGGCCCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.62
Consensus pattern (25 bp):
ATTTTAAAATTTGGCTTTATTTTTT
Found at i:62067194 original size:11 final size:11
Alignment explanation
Indices: 62067178--62067211 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
62067168 TCAATTATTT
62067178 TCTCAATTTCC
1 TCTCAATTTCC
*
62067189 TCTCAATTTGC
1 TCTCAATTTCC
62067200 TCTCAATTTCC
1 TCTCAATTTCC
62067211 T
1 T
62067212 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:62067206 original size:22 final size:22
Alignment explanation
Indices: 62067174--62067227 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
62067164 TCTCTCAATT
62067174 ATTT-TCTCAATTTCC-TCTC-A
1 ATTTCTCTCAATTTCCTTC-CAA
62067194 ATTTGCTCTCAATTTCCTTCCAA
1 ATTT-CTCTCAATTTCCTTCCAA
62067217 ATTTCTCTCAA
1 ATTTCTCTCAA
62067228 ATCTATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.22, C:0.30, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCCAA
Found at i:62067288 original size:51 final size:51
Alignment explanation
Indices: 62067191--62067288 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
62067181 CAATTTCCTC
*
62067191 TCAATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCTATATTTAATT
1 TCAATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAATT
* * *
62067242 TCAATTTGCTCTCAATTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAATTTCCTTC-CAAATTTCTCTCAAATCCATATTT
62067289 TTAATTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (51 bp):
TCAATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAATT
Found at i:62068449 original size:85 final size:85
Alignment explanation
Indices: 62068347--62068511 Score: 242
Period size: 85 Copynumber: 1.9 Consensus size: 85
62068337 GTTTTTAGAA
* * * * *
62068347 AAAAATGCCACTAAAGACCAAGACCTTTAGTGGCGCTTTT-TCACAAACGCCGCTAAAGACCAAG
1 AAAAATGCCACTAAAGACCAAGACCTTTAGCGACACTTTTCCCACAAACGCCACTAAAGACCAA-
62068411 ACCTTTAGCGACGCTTTTTCC
65 ACCTTTAGCGACGCTTTTTCC
* * *
62068432 AAAAATGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCACAAACGCCACTATAGATCAAA
1 AAAAATGCCACTAAAGACCAAGACCTTTAGCGACACTTTTCCCACAAACGCCACTAAAGACCAAA
62068497 CCTTTAGCGACGCTT
66 CCTTTAGCGACGCTT
62068512 CTAGCAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 52 0.73
86 19 0.27
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.22
Consensus pattern (85 bp):
AAAAATGCCACTAAAGACCAAGACCTTTAGCGACACTTTTCCCACAAACGCCACTAAAGACCAAA
CCTTTAGCGACGCTTTTTCC
Found at i:62068456 original size:43 final size:43
Alignment explanation
Indices: 62068347--62068511 Score: 208
Period size: 43 Copynumber: 3.9 Consensus size: 43
62068337 GTTTTTAGAA
* * *
62068347 AAAAATGCCACTAAAGACCAAGACCTTTAGTGGCGCTTTTT-C
1 AAAAACGCCACTAAAGACCAAGACCTTTAGCGACGCTTTTTCC
* *
62068389 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTTCC
1 AAAAACGCCACTAAAGACCAAGACCTTTAGCGACGCTTTTTCC
* * * *
62068432 AAAAATGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCC
1 AAAAACGCCACTAAAGACCAAGACCTTTAGCGACGCTTTTTCC
* * *
62068475 ACAAACGCCACTATAGATCAA-ACCTTTAGCGACGCTT
1 AAAAACGCCACTAAAGACCAAGACCTTTAGCGACGCTT
62068512 CTAGCAAAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 51 0.48
43 56 0.52
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.22
Consensus pattern (43 bp):
AAAAACGCCACTAAAGACCAAGACCTTTAGCGACGCTTTTTCC
Found at i:62068520 original size:85 final size:85
Alignment explanation
Indices: 62068347--62068531 Score: 237
Period size: 85 Copynumber: 2.2 Consensus size: 85
62068337 GTTTTTAGAA
* * * * * *
62068347 AAAAATGCCACTAAAGACCAAGACCTTTAGTGGCGCTTTTTCACAAACGCCGCTAAAGACCAAGA
1 AAAAATGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCACAAACGCCACTAAAGACCAAGA
* *
62068412 CCTTTAGCGACGCTTTTTCC
66 CCTTTAGCGACGCTTCTACC
* *
62068432 AAAAATGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCACAAACGCCACTATAGATCAA-
1 AAAAATGCCGCTAAAGACCAAGACCTTTAGCGACACTTTT-CCACAAACGCCACTAAAGACCAAG
*
62068496 ACCTTTAGCGACGCTTCTAGC
65 ACCTTTAGCGACGCTTCTACC
**
62068517 AAAAACACCGCTAAA
1 AAAAATGCCGCTAAA
62068532 AACATAACCT
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 67 0.78
86 19 0.22
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (85 bp):
AAAAATGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCACAAACGCCACTAAAGACCAAGA
CCTTTAGCGACGCTTCTACC
Found at i:62072093 original size:40 final size:39
Alignment explanation
Indices: 62072049--62072152 Score: 136
Period size: 39 Copynumber: 2.6 Consensus size: 39
62072039 AGTCTGGTTA
* *
62072049 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCAGAAT
* * * *
62072089 TAGTAACTCGCACCAATACCTTCGAGCTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCAGAAT
*
62072128 TAGTATCTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
62072153 ATCTTAGTCC
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 31 0.57
40 23 0.43
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCAGAAT
Found at i:62072150 original size:39 final size:39
Alignment explanation
Indices: 62072049--62072165 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 39
62072039 AGTCTGGTTA
* * * *
62072049 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGAG-CTTAGCCCAGAAT
* *
62072089 TAGTAACTCGCACCAATACCTTCGAGCTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTCGAGCTTAGCCCAGAAT
* * *
62072128 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCAGA
1 TAGTAACTCGCACAAATGCCTTC-GAGCTTAGCCCAGA
62072166 TATGGTCACT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 30 0.46
40 35 0.54
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGAGCTTAGCCCAGAAT
Found at i:62074114 original size:17 final size:17
Alignment explanation
Indices: 62074085--62074127 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
62074075 ATATTATAAT
62074085 ATTATATATTAATTTTGC
1 ATTATA-ATTAATTTTGC
62074103 ATTATAATTAATTTTGC
1 ATTATAATTAATTTTGC
62074120 ATTATAAT
1 ATTATAAT
62074128 ATTATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (17 bp):
ATTATAATTAATTTTGC
Found at i:62077026 original size:26 final size:26
Alignment explanation
Indices: 62076972--62077026 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
62076962 GTCTTTTTGT
* *
62076972 TTTGTTAAAAATTATAATTAATTTTA
1 TTTGTTAAAAATTATAATTAATGTGA
*
62076998 TTTGTTAAAAATTATTAGTTAA-GTGA
1 TTTGTTAAAAATTA-TAATTAATGTGA
62077024 TTT
1 TTT
62077027 TATTTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (26 bp):
TTTGTTAAAAATTATAATTAATGTGA
Found at i:62077450 original size:22 final size:21
Alignment explanation
Indices: 62077406--62077452 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
62077396 CCTTAAACAA
**
62077406 TAAACCATAAACCGTAATTCT
1 TAAACCATAAACCGTAAACCT
*
62077427 TAAACCCATAATCCGTAAACCT
1 TAAA-CCATAAACCGTAAACCT
62077449 TAAA
1 TAAA
62077453 ATAATAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.45, C:0.26, G:0.04, T:0.26
Consensus pattern (21 bp):
TAAACCATAAACCGTAAACCT
Found at i:62077835 original size:7 final size:7
Alignment explanation
Indices: 62077825--62077950 Score: 51
Period size: 7 Copynumber: 18.0 Consensus size: 7
62077815 AACCCTCAAC
62077825 CCTTAAA
1 CCTTAAA
62077832 CCTTAAA
1 CCTTAAA
** *
62077839 CCCCAAC
1 CCTTAAA
62077846 CCTT-AA
1 CCTTAAA
*
62077852 TC-TATAA
1 CCTTA-AA
62077859 CCTTAAA
1 CCTTAAA
*
62077866 CCATAAA
1 CCTTAAA
** *
62077873 CCACAAC
1 CCTTAAA
62077880 CCTTAAA
1 CCTTAAA
*
62077887 CCCTAAA
1 CCTTAAA
*
62077894 TCTTAAA
1 CCTTAAA
*
62077901 CCATAAA
1 CCTTAAA
62077908 -CTGTAAA
1 CCT-TAAA
* *
62077915 CCATAAC
1 CCTTAAA
*
62077922 CCCTAAA
1 CCTTAAA
* *
62077929 CTCATAAT
1 C-CTTAAA
*
62077937 CCATAAA
1 CCTTAAA
62077944 CCTTAAA
1 CCTTAAA
62077951 ATAGTAACTC
Statistics
Matches: 85, Mismatches: 28, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
7 73 0.86
8 8 0.09
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.23
Consensus pattern (7 bp):
CCTTAAA
Found at i:62077889 original size:42 final size:43
Alignment explanation
Indices: 62077843--62077950 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 43
62077833 CTTAAACCCC
*
62077843 AACCCTTAATCTAT-AACCTTAAACCATAAACCACAACCCTTA
1 AACCCTTAATCTATAAACCTTAAACCATAAACCACAACCCCTA
* * ** *
62077885 AACCCTAAATCT-TAAACCATAAACTGTAAACCATAACCCCTA
1 AACCCTTAATCTATAAACCTTAAACCATAAACCACAACCCCTA
* * *
62077927 AACTCATAATCCATAAACCTTAAA
1 AACCCTTAATCTATAAACCTTAAA
62077951 ATAGTAACTC
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 1 0.02
42 42 0.79
43 10 0.19
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (43 bp):
AACCCTTAATCTATAAACCTTAAACCATAAACCACAACCCCTA
Found at i:62077928 original size:14 final size:14
Alignment explanation
Indices: 62077857--62077950 Score: 64
Period size: 14 Copynumber: 6.6 Consensus size: 14
62077847 CTTAATCTAT
* *
62077857 AACCTTAAACCATA
1 AACCATAAACCTTA
* *
62077871 AACCACAACCCTTA
1 AACCATAAACCTTA
* *
62077885 AACCCTAAATCTTA
1 AACCATAAACCTTA
62077899 AACCATAAA-CTGTA
1 AACCATAAACCT-TA
* *
62077913 AACCATAACCCCTA
1 AACCATAAACCTTA
* *
62077927 AACTCATAATCCATA
1 AAC-CATAAACCTTA
*
62077942 AACCTTAAA
1 AACCATAAA
62077951 ATAGTAACTC
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
13 2 0.03
14 47 0.76
15 13 0.21
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (14 bp):
AACCATAAACCTTA
Found at i:62078293 original size:19 final size:20
Alignment explanation
Indices: 62078267--62078312 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
62078257 ATAGAATTTT
62078267 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
62078285 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
62078305 AATAAAAT
1 AATTAAAT
62078313 GTTTTTTCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:62078377 original size:41 final size:41
Alignment explanation
Indices: 62078320--62078551 Score: 304
Period size: 41 Copynumber: 5.7 Consensus size: 41
62078310 AATGTTTTTT
62078320 CGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAG
1 CGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAG
* *
62078361 CGGCGCTTTTCCAAAAATGCCGCTAAAGACCAGAGCATTAG
1 CGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAG
* *
62078402 CGGC-ATTTTCTAAAAACGCCGCTAAAGACCTGAGCATTAG
1 CGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAG
* * * * *
62078442 CGGCGCTTTCCCAGAAACGCTGTTAAAGACCAGAGCATTAG
1 CGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAG
* * * ** *
62078483 TGGCGCTTCTCAAAAAACATCGCTAAAGACCAAAGCATTAG
1 CGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAG
* *
62078524 CGGCGCTTTTATAAAAACGCCACTAAAG
1 CGGCGCTTTTCTAAAAACGCCGCTAAAG
62078552 CCCCGAAAGG
Statistics
Matches: 160, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
40 36 0.22
41 124 0.77
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (41 bp):
CGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAG
Found at i:62078469 original size:81 final size:82
Alignment explanation
Indices: 62078320--62078551 Score: 295
Period size: 81 Copynumber: 2.8 Consensus size: 82
62078310 AATGTTTTTT
* * *
62078320 CGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTCCAAAAATGCCGCT
1 CGGCGATTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCT
62078385 AAAGACCAGAGCATTAG
66 AAAGACCAGAGCATTAG
* * * *
62078402 CGGC-ATTTTCTAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCCCAGAAACGCTGTT
1 CGGCGATTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCT
62078466 AAAGACCAGAGCATTAG
66 AAAGACCAGAGCATTAG
* * * * ** * *** *
62078483 TGGCGCTTCTCAAAAAACATCGCTAAAGACCAAAGCATTAGCGGCGCTTTTATAAAAACGCCACT
1 CGGCGATTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCT
62078548 AAAG
66 AAAG
62078552 CCCCGAAAGG
Statistics
Matches: 127, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 73 0.57
82 54 0.43
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (82 bp):
CGGCGATTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCT
AAAGACCAGAGCATTAG
Found at i:62079585 original size:18 final size:18
Alignment explanation
Indices: 62079562--62079604 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
62079552 TGCCAAGTGC
* *
62079562 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
62079580 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
62079598 GTTTCCT
1 GTATCCT
62079605 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:62079870 original size:21 final size:21
Alignment explanation
Indices: 62079845--62079892 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
62079835 CCAACACCGA
62079845 CAACCAG-ATGCCCTACCGGAG
1 CAACCAGAAT-CCCTACCGGAG
* *
62079866 GAACCAGAATCCCTGCCGGAG
1 CAACCAGAATCCCTACCGGAG
62079887 CAACCA
1 CAACCA
62079893 CAACCCCCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (21 bp):
CAACCAGAATCCCTACCGGAG
Found at i:62080117 original size:7 final size:7
Alignment explanation
Indices: 62080102--62080138 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
62080092 TATTAAAAAA
62080102 TTATAAAT
1 TTAT-AAT
62080110 TTATAAT
1 TTATAAT
62080117 TTATAA-
1 TTATAAT
62080123 TTA-AAT
1 TTATAAT
62080129 TTATAAT
1 TTATAAT
62080136 TTA
1 TTA
62080139 ATTGACAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 2 0.07
6 6 0.22
7 15 0.56
8 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTATAAT
Found at i:62080243 original size:6 final size:6
Alignment explanation
Indices: 62080232--62080257 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
62080222 TCTTAACAAA
62080232 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
62080258 TATGATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:62080432 original size:19 final size:19
Alignment explanation
Indices: 62080355--62080434 Score: 55
Period size: 19 Copynumber: 4.4 Consensus size: 19
62080345 TTTGACTGGT
62080355 ACTAACAATTAATAATTTG
1 ACTAACAATTAATAATTTG
* * *
62080374 A-TATA-ATTTGATAATTTT
1 ACTA-ACAATTAATAATTTG
*
62080392 AGTAACAATTAATACA----
1 ACTAACAATTAATA-ATTTG
*
62080408 ATTAACAATTAATAATTTG
1 ACTAACAATTAATAATTTG
62080427 ACTAACAA
1 ACTAACAA
62080435 AATGTTTTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
15 1 0.02
16 13 0.28
18 14 0.30
19 17 0.37
20 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.38
Consensus pattern (19 bp):
ACTAACAATTAATAATTTG
Found at i:62080475 original size:112 final size:111
Alignment explanation
Indices: 62080255--62080463 Score: 283
Period size: 112 Copynumber: 1.9 Consensus size: 111
62080245 ACCCTAACCC
*
62080255 TAATATGATATAATTTGATAAATTTAATAAAAATTAATACAATTAACAATTATTAATTTGACTAA
1 TAATATGATATAATTTGATAAATTTAATAAAAATTAATACAATTAACAATTAATAATTTGACTAA
* *** * *
62080320 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
66 CAAAATGTTAGATTGTACAAAAAAATATAACTGGTA-TAACAATTAA
* * * *
62080367 TAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAATTAATAATTTGACTAA
1 TAATATGATATAATTTGATAAATTTAATAAAAATTAATACAATTAACAATTAATAATTTGACTAA
*
62080432 CAAAATGTTTTGATTGGTACAAAAAAATATAA
66 CAAAATG-TTAGATT-GTACAAAAAAATATAA
62080464 TTTGTTTACA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
112 67 0.81
113 6 0.07
114 10 0.12
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (111 bp):
TAATATGATATAATTTGATAAATTTAATAAAAATTAATACAATTAACAATTAATAATTTGACTAA
CAAAATGTTAGATTGTACAAAAAAATATAACTGGTATAACAATTAA
Found at i:62083801 original size:21 final size:22
Alignment explanation
Indices: 62083762--62083807 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
62083752 TTTTCTCTAA
*
62083762 AACCCTAAAAATCTTAAAACCT
1 AACCCTAAAAATCTCAAAACCT
*
62083784 AACCCTAAAAA-CTCAAAACGT
1 AACCCTAAAAATCTCAAAACCT
62083805 AAC
1 AAC
62083808 GTTGGATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.17
Consensus pattern (22 bp):
AACCCTAAAAATCTCAAAACCT
Found at i:62097157 original size:16 final size:16
Alignment explanation
Indices: 62097136--62097168 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62097126 GCGCTAATTG
62097136 AGATATAGTCAAAATA
1 AGATATAGTCAAAATA
62097152 AGATATAGTCAAAATA
1 AGATATAGTCAAAATA
62097168 A
1 A
62097169 CTCCACTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (16 bp):
AGATATAGTCAAAATA
Found at i:62100728 original size:23 final size:20
Alignment explanation
Indices: 62100675--62100728 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
62100665 ACATAGTTAA
*
62100675 GAAAAAATTAAAAATTTGAG
1 GAAAAAATTAAAAACTTGAG
* *
62100695 GAATAATTTAACATAACTTGATG
1 GAAAAAATTAA-A-AACTTGA-G
62100718 GAAAAAATTAA
1 GAAAAAATTAA
62100729 TTTTCGTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 9 0.35
21 1 0.04
22 6 0.23
23 10 0.38
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.28
Consensus pattern (20 bp):
GAAAAAATTAAAAACTTGAG
Found at i:62107746 original size:32 final size:32
Alignment explanation
Indices: 62107710--62107775 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
62107700 CTTTCAAATA
62107710 TAAGATAATAAATTCACCAGGAAAAATGAATT
1 TAAGATAATAAATTCACCAGGAAAAATGAATT
*
62107742 TAAGATAATAAATTCAGCAGGAAAAATGAATT
1 TAAGATAATAAATTCACCAGGAAAAATGAATT
62107774 TA
1 TA
62107776 TCCACACGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.53, C:0.08, G:0.14, T:0.26
Consensus pattern (32 bp):
TAAGATAATAAATTCACCAGGAAAAATGAATT
Found at i:62110462 original size:31 final size:31
Alignment explanation
Indices: 62110427--62110486 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
62110417 GAAAAACTAA
*
62110427 TTTTCACGAAGTATCTGCAGGACCACCCTAC
1 TTTTCACGAAGTATCTGCAAGACCACCCTAC
*
62110458 TTTTCACGAAGTATCTGTAAGACCACCCT
1 TTTTCACGAAGTATCTGCAAGACCACCCT
62110487 CAGATGATCA
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:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (31 bp):
TTTTCACGAAGTATCTGCAAGACCACCCTAC
Found at i:62120079 original size:19 final size:19
Alignment explanation
Indices: 62120057--62120108 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
62120047 ATGCATATGC
62120057 GCCAAGATGCACTTCGTGT
1 GCCAAGATGCACTTCGTGT
62120076 GCCAAGATGCACTTCGTGT
1 GCCAAGATGCACTTCGTGT
*
62120095 TCC-AGTATGCACTT
1 GCCAAG-ATGCACTT
62120109 TATGTGCCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 2 0.06
19 29 0.94
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (19 bp):
GCCAAGATGCACTTCGTGT
Found at i:62120118 original size:19 final size:19
Alignment explanation
Indices: 62120063--62120119 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
62120053 ATGCGCCAAG
62120063 ATGCACTTCGTGTGCCAAG-
1 ATGCACTTCGTGTGCC-AGT
*
62120082 ATGCACTTCGTGTTCCAGT
1 ATGCACTTCGTGTGCCAGT
**
62120101 ATGCACTTTATGTGCCAGT
1 ATGCACTTCGTGTGCCAGT
62120120 TTACCCTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 2 0.06
19 31 0.94
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (19 bp):
ATGCACTTCGTGTGCCAGT
Found at i:62122544 original size:16 final size:15
Alignment explanation
Indices: 62122518--62122560 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
62122508 TATCTTAAAC
*
62122518 TATGAATATGTGTGTTT
1 TATG-ATATGTGT-TTA
62122535 TATGATATGTGTTTA
1 TATGATATGTGTTTA
*
62122550 TATGACATGTG
1 TATGATATGTG
62122561 ACCATTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.50
16 8 0.33
17 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (15 bp):
TATGATATGTGTTTA
Found at i:62122664 original size:39 final size:39
Alignment explanation
Indices: 62122606--62122732 Score: 182
Period size: 39 Copynumber: 3.3 Consensus size: 39
62122596 GTATTGCGAT
62122606 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
** *
62122645 ATATATGCTTGAACATTATGTAATTATATGAGTATTGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
* * * * *
62122684 GTATATGATTAAATGTTATGTGATTATATGTGTAATGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
62122723 ATATATGCTT
1 ATATATGCTT
62122733 AAAAGTAAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (39 bp):
ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
Found at i:62134536 original size:40 final size:39
Alignment explanation
Indices: 62134426--62134625 Score: 181
Period size: 39 Copynumber: 5.1 Consensus size: 39
62134416 ATTTATGTGT
* * *
62134426 CCCTATTTGTACTTCAGTACCCTTAATTGCACTTATGTG
1 CCCTATTTGTACTTCGGTACCCCTAATTGCACTTACGTG
**
62134465 CCCCTATTCATAC-TCGGTACCCCTGAA-TGCACTTACGTG
1 -CCCTATTTGTACTTCGGTACCCCT-AATTGCACTTACGTG
** * ** *
62134504 CGCCTATTTGTACTTTTGTACCCCTGATTGCACACACGTT
1 C-CCTATTTGTACTTCGGTACCCCTAATTGCACTTACGTG
* *
62134544 CCTCTATTTGTACTTTGGTA-CCCTAATTGCACATACGTG
1 CC-CTATTTGTACTTCGGTACCCCTAATTGCACTTACGTG
* * * *
62134583 CCTCTGTTTGTACTCCGGTACACCTAAATGCACTTACGTG
1 CC-CTATTTGTACTTCGGTACCCCTAATTGCACTTACGTG
62134623 CCC
1 CCC
62134626 CTGTTTATAC
Statistics
Matches: 131, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 65 0.50
40 65 0.50
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (39 bp):
CCCTATTTGTACTTCGGTACCCCTAATTGCACTTACGTG
Found at i:62134587 original size:39 final size:39
Alignment explanation
Indices: 62134426--62134636 Score: 183
Period size: 40 Copynumber: 5.3 Consensus size: 39
62134416 ATTTATGTGT
* *
62134426 CCCTATTTGTACTTCAGTACCCTTAATTGCACTTATGTGC
1 CCCTATTTGTACTTCGGTACCC-TAATTGCACTTACGTGC
**
62134466 CCCTATTCATAC-TCGGTACCCCTGAA-TGCACTTACGTGC
1 CCCTATTTGTACTTCGGTA-CCCT-AATTGCACTTACGTGC
* ** * ** *
62134505 GCCTATTTGTACTTTTGTACCCCTGATTGCACACACGTTC
1 CCCTATTTGTACTTCGGTA-CCCTAATTGCACTTACGTGC
* * *
62134545 CTCTATTTGTACTTTGGTACCCTAATTGCACATACGTGC
1 CCCTATTTGTACTTCGGTACCCTAATTGCACTTACGTGC
* * * *
62134584 CTCTGTTTGTACTCCGGTACACCTAAATGCACTTACGTGC
1 CCCTATTTGTACTTCGGTAC-CCTAATTGCACTTACGTGC
* *
62134624 CCCTGTTTATACT
1 CCCTATTTGTACT
62134637 CTGGTACATT
Statistics
Matches: 140, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
39 62 0.44
40 78 0.56
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (39 bp):
CCCTATTTGTACTTCGGTACCCTAATTGCACTTACGTGC
Found at i:62134642 original size:79 final size:78
Alignment explanation
Indices: 62134427--62134643 Score: 206
Period size: 79 Copynumber: 2.7 Consensus size: 78
62134417 TTTATGTGTC
* *
62134427 CCTATTTGTACTTCAGTACCCTTAATTGCACTTATGTGCCCCTATTCATACTC-GGTACCCCTGA
1 CCTATTTGTACTTCAGTACCC-TAATTGCACTTACGTGCCCCTATTTATACTCTGGTA-CCCTGA
*
62134491 ATGCACTTACGTGCG
64 ATGCACATACGTGCG
** * ** * * * *
62134506 CCTATTTGTACTTTTGTACCCCTGATTGCACACACGTTCCTCTATTTGTACTTTGGTACCCT-AA
1 CCTATTTGTACTTCAGTA-CCCTAATTGCACTTACGTGCCCCTATTTATACTCTGGTACCCTGAA
62134570 TTGCACATACGTGC-
65 -TGCACATACGTGCG
* * * * *
62134584 CTCTGTTTGTACTCCGGTACACCTAAATGCACTTACGTGCCCCTGTTTATACTCTGGTAC
1 C-CTATTTGTACTTCAGTAC-CCTAATTGCACTTACGTGCCCCTATTTATACTCTGGTAC
62134644 ATTGAATCAA
Statistics
Matches: 108, Mismatches: 25, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
78 4 0.04
79 97 0.90
80 7 0.06
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.36
Consensus pattern (78 bp):
CCTATTTGTACTTCAGTACCCTAATTGCACTTACGTGCCCCTATTTATACTCTGGTACCCTGAAT
GCACATACGTGCG
Found at i:62139139 original size:20 final size:21
Alignment explanation
Indices: 62139114--62139159 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
62139104 TATAAATATC
* *
62139114 ACCTTTATTTATTATT-TTCA
1 ACCTTTAGTCATTATTATTCA
62139134 ACCTTTAGTCATTATTATTCA
1 ACCTTTAGTCATTATTATTCA
*
62139155 GCCTT
1 ACCTT
62139160 AGCCGCCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.52
Consensus pattern (21 bp):
ACCTTTAGTCATTATTATTCA
Found at i:62140273 original size:34 final size:36
Alignment explanation
Indices: 62140220--62140289 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
62140210 TAACATAATT
62140220 GATACATAACAACCATACC-ATTTTGGCCATTTAAA
1 GATACATAACAACCATACCAATTTTGGCCATTTAAA
*
62140255 GATACATTAAC-A-CATACCAATTTTGGTCATTTAAA
1 GATACA-TAACAACCATACCAATTTTGGCCATTTAAA
62140290 AGCATACACC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.19
35 22 0.69
36 4 0.12
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (36 bp):
GATACATAACAACCATACCAATTTTGGCCATTTAAA
Found at i:62140839 original size:20 final size:19
Alignment explanation
Indices: 62140798--62140839 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
62140788 TTTTCCAAAT
*
62140798 TTTCTTACTTTCATTTGTA
1 TTTCTTACTTTCATTTGCA
62140817 TTTCGTTACTTTCCA-TTGCA
1 TTTC-TTACTTT-CATTTGCA
62140837 TTT
1 TTT
62140840 ACTTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTCTTACTTTCATTTGCA
Found at i:62141301 original size:16 final size:16
Alignment explanation
Indices: 62141277--62141336 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
62141267 TGGTTCACTG
* *
62141277 TAATGGAATAAAGCTA
1 TAATTGAATAGAGCTA
62141293 TAATTGAATAGAGCTA
1 TAATTGAATAGAGCTA
*
62141309 TAATTGAATAGAGCTG
1 TAATTGAATAGAGCTA
62141325 T-ATTGGAATAGA
1 TAATT-GAATAGA
62141337 ACAGTAATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
15 3 0.08
16 37 0.93
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (16 bp):
TAATTGAATAGAGCTA
Found at i:62141382 original size:45 final size:43
Alignment explanation
Indices: 62141328--62141417 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 43
62141318 AGAGCTGTAT
62141328 TGGAATAGAACAGTAATAGTAATTCAAT-TGTTTGGTTGAATGGAA
1 TGGAATAGAACAGTAATAGT-ATTC-ATGTGTTTGGTTG-ATGGAA
* *
62141373 TGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGATGGAA
1 TGGAATAGAACAGTAATAGTATTCATGTGTTTGGTTGATGGAA
62141416 TG
1 TG
62141418 ATGATGTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 9 0.21
44 14 0.33
45 19 0.45
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (43 bp):
TGGAATAGAACAGTAATAGTATTCATGTGTTTGGTTGATGGAA
Found at i:62141645 original size:55 final size:55
Alignment explanation
Indices: 62141529--62141645 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
62141519 GATTCTTAAT
* * *
62141529 ATAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAATTTA
1 ATAAA-AATAAATAATTTAATAAAATTTTAACATAATTATTATTAAATATAATATA
* * * *
62141585 ATAAAAATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATA-AATATA
1 ATAAAAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAAATATAATATA
*
62141640 CTAAAA
1 ATAAAA
62141646 TCATAATATA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
55 28 0.54
56 24 0.46
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (55 bp):
ATAAAAATAAATAATTTAATAAAATTTTAACATAATTATTATTAAATATAATATA
Found at i:62141752 original size:5 final size:5
Alignment explanation
Indices: 62141742--62141780 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
62141732 AATCACCCAA
62141742 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAA
62141781 GTGTTTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:62143199 original size:15 final size:15
Alignment explanation
Indices: 62143179--62143218 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
62143169 AAACAGACAC
62143179 AACAACAAGAACAAG
1 AACAACAAGAACAAG
*
62143194 AACAACAAGAACGAG
1 AACAACAAGAACAAG
62143209 AACAA-AAGAA
1 AACAACAAGAA
62143219 ACAATCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.68, C:0.17, G:0.15, T:0.00
Consensus pattern (15 bp):
AACAACAAGAACAAG
Found at i:62148941 original size:11 final size:11
Alignment explanation
Indices: 62148922--62148953 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
62148912 GATATATAAA
*
62148922 AAAACAAAAGG
1 AAAAGAAAAGG
62148933 AAAAGAAAAGG
1 AAAAGAAAAGG
62148944 AAAAGAAAAG
1 AAAAGAAAAG
62148954 AGAAGGGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGG
Found at i:62148951 original size:16 final size:17
Alignment explanation
Indices: 62148927--62148959 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62148917 ATAAAAAAAC
62148927 AAAAGGAAAAGAAAAGG
1 AAAAGGAAAAGAAAAGG
*
62148944 AAAA-GAAAAGAGAAGG
1 AAAAGGAAAAGAAAAGG
62148960 GAAGGGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (17 bp):
AAAAGGAAAAGAAAAGG
Found at i:62161419 original size:124 final size:124
Alignment explanation
Indices: 62161198--62161697 Score: 793
Period size: 124 Copynumber: 4.0 Consensus size: 124
62161188 TTAGGGTTTT
* *** * * *
62161198 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTTTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTT-TTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGC
* **
62161263 TGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGGGCTTTTGCTACAG
65 TGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACACGCTTTTGCTACAG
* * *
62161323 TAGGTCATGGAAAAAATAATTTTTTTTGACGTTTCTGAGGAAATAGTATAAAATCGCTTCTAGCT
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCT
*
62161388 GGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACACGTTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACACGCTTTTGCTACAG
* *
62161447 TACGTCATGGAAGAAATAATTTTTTATGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCT
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCT
*
62161512 GGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACACGTTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACACGCTTTTGCTACAG
*
62161571 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCT
* * * *
62161636 AGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCGCGTGGACGCGCTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACACGCTTTTGCTACAG
62161695 TAG
1 TAG
62161698 CATGTTTGGG
Statistics
Matches: 350, Mismatches: 25, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
124 330 0.94
125 20 0.06
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (124 bp):
TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCT
GGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACACGCTTTTGCTACAG
Found at i:62164938 original size:13 final size:13
Alignment explanation
Indices: 62164920--62164946 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62164910 AAAAAATTCT
62164920 AAAATTATATTTA
1 AAAATTATATTTA
62164933 AAAATTATATTTA
1 AAAATTATATTTA
62164946 A
1 A
62164947 CGCTTACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTATATTTA
Found at i:62165156 original size:11 final size:11
Alignment explanation
Indices: 62165142--62165207 Score: 66
Period size: 11 Copynumber: 5.9 Consensus size: 11
62165132 TTAAATATGG
62165142 ATTTGAGAGAA
1 ATTTGAGAGAA
*
62165153 ATTTTGA-AGGA
1 A-TTTGAGAGAA
62165164 ATTTGAGAGCAA
1 ATTTGAGAG-AA
62165176 A-TTGAGAGGAA
1 ATTTGAGA-GAA
62165187 A-TTGAGAGGAA
1 ATTTGAGA-GAA
62165198 ATTTGAGAGA
1 ATTTGAGAGA
62165208 GGATTAGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.10
11 29 0.60
12 14 0.29
ACGTcount: A:0.42, C:0.02, G:0.30, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:62165167 original size:22 final size:23
Alignment explanation
Indices: 62165142--62165206 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
62165132 TTAAATATGG
62165142 ATTTGAGAGAAATTTTGA-AGGA
1 ATTTGAGAGAAATTTTGAGAGGA
62165164 ATTTGAGAGCAAA--TTGAGAGGA
1 ATTTGAGAG-AAATTTTGAGAGGA
*
62165186 AATTGAGAGGAAA-TTTGAGAG
1 ATTTGAGA-GAAATTTTGAGAG
62165207 AGGATTAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 4 0.11
22 23 0.61
23 11 0.29
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.26
Consensus pattern (23 bp):
ATTTGAGAGAAATTTTGAGAGGA
Found at i:62165210 original size:14 final size:11
Alignment explanation
Indices: 62165156--62165206 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
62165146 GAGAGAAATT
*
62165156 TTGA-AGGAAT
1 TTGAGAGGAAA
*
62165166 TTGAGAGCAAA
1 TTGAGAGGAAA
62165177 TTGAGAGGAAA
1 TTGAGAGGAAA
62165188 TTGAGAGGAAA
1 TTGAGAGGAAA
62165199 TTTGAGAG
1 -TTGAGAG
62165207 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
10 4 0.11
11 25 0.69
12 7 0.19
ACGTcount: A:0.41, C:0.02, G:0.33, T:0.24
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:62169335 original size:15 final size:16
Alignment explanation
Indices: 62169315--62169347 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
62169305 CTTATTGATG
62169315 ACTATTTA-ATATTTT
1 ACTATTTAGATATTTT
62169330 ACTATTTATGATATTTT
1 ACTATTTA-GATATTTT
62169347 A
1 A
62169348 ATTATGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (16 bp):
ACTATTTAGATATTTT
Found at i:62170932 original size:35 final size:36
Alignment explanation
Indices: 62170886--62170966 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 36
62170876 ATTGGTCGTA
62170886 CGAGCTAAATA-TATAA-G-CATGTCAACTTACTTGTC
1 CGAGCTAAATATTATAATGACA--TCAACTTACTTGTC
**
62170921 CGAGCTAAATATTTATAATGACATCAGGTTACTTGTC
1 CGAGCTAAATA-TTATAATGACATCAACTTACTTGTC
62170958 CGAGCTAAA
1 CGAGCTAAA
62170967 CTTGTGTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
35 11 0.28
37 26 0.65
38 1 0.03
39 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (36 bp):
CGAGCTAAATATTATAATGACATCAACTTACTTGTC
Found at i:62178404 original size:24 final size:24
Alignment explanation
Indices: 62178352--62178416 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
62178342 AGCTTTTTCG
* * *
62178352 AGCCATATAACGGAAAGCTCCGATG
1 AGCCAT-TAACGGGAAGCTCAGATA
*
62178377 AGCCATTAACGGGAAGCTCATATA
1 AGCCATTAACGGGAAGCTCAGATA
* *
62178401 AGCCAATATCGGGAAG
1 AGCCATTAACGGGAAG
62178417 TTCAAGCAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 28 0.82
25 6 0.18
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.17
Consensus pattern (24 bp):
AGCCATTAACGGGAAGCTCAGATA
Found at i:62179804 original size:12 final size:12
Alignment explanation
Indices: 62179787--62179830 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
62179777 GACACTCCGT
62179787 AAATATTTATAA
1 AAATATTTATAA
62179799 AAATATTTAT--
1 AAATATTTATAA
62179809 AAATATTTATAA
1 AAATATTTATAA
62179821 AAATATTTAT
1 AAATATTTAT
62179831 GGCTCGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.33
12 20 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:62179811 original size:22 final size:22
Alignment explanation
Indices: 62179786--62179830 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
62179776 TGACACTCCG
62179786 TAAATATTTATAAAAATATTTA
1 TAAATATTTATAAAAATATTTA
62179808 TAAATATTTATAAAAATATTTA
1 TAAATATTTATAAAAATATTTA
62179830 T
1 T
62179831 GGCTCGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATATTTATAAAAATATTTA
Found at i:62179812 original size:10 final size:10
Alignment explanation
Indices: 62179786--62179821 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
62179776 TGACACTCCG
62179786 TAAATATTTA
1 TAAATATTTA
62179796 TAAAAATATTTA
1 T--AAATATTTA
62179808 TAAATATTTA
1 TAAATATTTA
62179818 TAAA
1 TAAA
62179822 AATATTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 14 0.58
12 10 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAATATTTA
Found at i:62187125 original size:18 final size:18
Alignment explanation
Indices: 62187104--62187138 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62187094 ATATTGATTG
62187104 TATTTGA-TATCTTATTTC
1 TATTTGATTAT-TTATTTC
62187122 TATTTGATTATTTATTT
1 TATTTGATTATTTATTT
62187139 AAATAATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (18 bp):
TATTTGATTATTTATTTC
Found at i:62189629 original size:16 final size:16
Alignment explanation
Indices: 62189608--62189640 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62189598 AATTGTAGAA
62189608 GAAGGGGACTCGAGAG
1 GAAGGGGACTCGAGAG
62189624 GAAGGGGACTCGAGAG
1 GAAGGGGACTCGAGAG
62189640 G
1 G
62189641 TAGAGGTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.52, T:0.06
Consensus pattern (16 bp):
GAAGGGGACTCGAGAG
Found at i:62189647 original size:6 final size:6
Alignment explanation
Indices: 62189636--62189664 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
62189626 AGGGGACTCG
62189636 AGAGGT AGAGGT AGAGGT AGAGGT AGAGG
1 AGAGGT AGAGGT AGAGGT AGAGGT AGAGG
62189665 GAGAAGAAAA
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:0.34, C:0.00, G:0.52, T:0.14
Consensus pattern (6 bp):
AGAGGT
Found at i:62200879 original size:21 final size:21
Alignment explanation
Indices: 62200853--62200892 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
62200843 AATAAACACC
62200853 AAAAAA-AATTTTAGAAAATTA
1 AAAAAAGAATTTTA-AAAATTA
*
62200874 AAAAAAGTATTTTAAAAAT
1 AAAAAAGAATTTTAAAAAT
62200893 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAAAGAATTTTAAAAATTA
Found at i:62200885 original size:22 final size:19
Alignment explanation
Indices: 62200853--62200892 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
62200843 AATAAACACC
62200853 AAAAAAAATTTTAGAAAATT
1 AAAAAAAATTTTA-AAAATT
62200873 AAAAAAAGTATTTTAAAAAT
1 AAAAAAA--ATTTTAAAAAT
62200893 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAAAAAATTTTAAAAATT
Found at i:62200891 original size:31 final size:30
Alignment explanation
Indices: 62200855--62200949 Score: 120
Period size: 30 Copynumber: 3.0 Consensus size: 30
62200845 TAAACACCAA
*
62200855 AAAAAATTTTAGAAAATTAAAAAAAGTATTTT
1 AAAATATTTTA-AAAA-TAAAAAAAGTATTTT
62200887 AAAAATATTTTAAAAAT-AAAAAAGTATTTT
1 -AAAATATTTTAAAAATAAAAAAAGTATTTT
*
62200917 AAAATATTTTTAAAAATAAAAAAAATATATTT
1 AAAATA-TTTTAAAAATAAAAAAAGTAT-TTT
62200949 A
1 A
62200950 TTATATTTGG
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
29 6 0.11
30 23 0.40
31 10 0.18
32 8 0.14
33 10 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATATTTTAAAAATAAAAAAAGTATTTT
Done.