Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008964.1 Hibiscus syriacus cultivar Beakdansim tig00112305_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2156694
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 3 of 11
Found at i:317399 original size:2 final size:2
Alignment explanation
Indices: 317386--317452 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
317376 AAAATAGGAA
*
317386 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
317428 AT AT AT AT AC AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
317453 ATAAAATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:317927 original size:37 final size:37
Alignment explanation
Indices: 317837--317929 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
317827 GGATCCTATC
* * * *
317837 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCCTAGCAAAACTCTATCATATT
* *
317874 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCTTATT
1 TTTAGGAGTTTGAATCCTAGCAAAACTCTATCATATT
317911 TTTAGGAGTTTGAATCCTA
1 TTTAGGAGTTTGAATCCTA
317930 ATAGGACGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGCAAAACTCTATCATATT
Found at i:318816 original size:106 final size:106
Alignment explanation
Indices: 318632--319403 Score: 1294
Period size: 106 Copynumber: 7.3 Consensus size: 106
318622 GCATTGTTCC
* * ** *
318632 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * * *
318696 ACCATCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
318738 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
318803 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
318844 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGATGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
318909 CAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTCGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
318950 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
319015 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
319056 GAGTCCAATATCCTTCGAAGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
319121 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
319162 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
319227 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
319268 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
319333 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTTCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
319374 GAGTCCAATATCCTTCGTTGTGAAGTTGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAA
319404 CTTGTGTTGT
Statistics
Matches: 628, Mismatches: 37, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
106 627 1.00
107 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:319403 original size:43 final size:43
Alignment explanation
Indices: 319342--319443 Score: 152
Period size: 43 Copynumber: 2.4 Consensus size: 43
319332 ACCAGCGGTC
*
319342 CCTTCGTCGTGAAGTTGAACTT-TCGTTGTCTGGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGT-GTTGTCTGGAGTCCAATAT
*
319385 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATAT
* *
319428 CTTTCGCTGTGAAGTT
1 CCTTCGTTGTGAAGTT
319444 AAAATTAGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 53 0.98
44 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.40
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATAT
Found at i:319437 original size:255 final size:254
Alignment explanation
Indices: 319130--319657 Score: 923
Period size: 255 Copynumber: 2.1 Consensus size: 254
319120 ACCAGCGGTC
* *
319130 CCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
* *
319195 GGCTCTGAAATT-AGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
66 AGCTCTGAAATTGA-GAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTG
319259 CGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTT
130 CGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG-AATTGAGAAATTGTT
*
319324 TATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTTCGTTGTCTGGAGTCCAATAT
194 TATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* *
319385 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCTTTCGCTGTGAAGTTAAAATT
1 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
* *
319450 AGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
66 AGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
* *
319515 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTGGGAAGTTGTTTA
131 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTGAGAAATTGTTTA
319580 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
196 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
319639 CCTTTGTTGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
319658 ATTGGCTCTG
Statistics
Matches: 260, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
254 91 0.35
255 168 0.65
256 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (254 bp):
CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
AGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTGAGAAATTGTTTA
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:319441 original size:149 final size:149
Alignment explanation
Indices: 319236--319552 Score: 535
Period size: 149 Copynumber: 2.1 Consensus size: 149
319226 ACCAGCGGTC
* *
319236 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
* * *
319301 GGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTTC
66 AGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
319366 GTTGTCTGGAGTCCAATAT
131 GTTGTCTGGAGTCCAATAT
* * *
319385 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCTTTCGCTGTGAAGTTAAAATT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
* *
319450 AGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
66 AGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
319515 GTTGTCTGGAGTCCAATAT
131 GTTGTCTGGAGTCCAATAT
*
319534 CCTTCGCTGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
319553 ATTGGCTCTG
Statistics
Matches: 157, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
149 157 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (149 bp):
CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
AGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
GTTGTCTGGAGTCCAATAT
Found at i:319495 original size:106 final size:106
Alignment explanation
Indices: 319385--320293 Score: 1577
Period size: 106 Copynumber: 8.6 Consensus size: 106
319375 AGTCCAATAT
* * * * *
319385 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCTTTCGCTGTGAAGTTAAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * * * *
319450 AGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
319491 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
*
319556 GGCTCTG-AATTGGGAAGTTGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
* *
319596 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTTGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
*
319661 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGATC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
319702 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* *
319767 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACAAGCGGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
* *
319808 CCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
*
319873 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
* **
319914 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGAAGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
*
319979 GGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
320020 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
*
320085 GGCTCTGAAATTAGGAAATTGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
320126 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
*
320191 GGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
*
320232 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAA
320294 CTTGTGTTGT
Statistics
Matches: 766, Mismatches: 36, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
105 100 0.13
106 666 0.87
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
Found at i:319797 original size:572 final size:573
Alignment explanation
Indices: 318812--319975 Score: 2042
Period size: 572 Copynumber: 2.0 Consensus size: 573
318802 ACCAGCGATC
* *
318812 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTAGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
* * * *
318877 GGCTCTGAAATTGGGATGTTGTTTATTGACAACAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 AGCTCTGAAATTGAGAAGTTGTTTATTGACAACAAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
*
318942 GTCGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT
131 GTCGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT
319007 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTC
196 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTC
*
319072 GAAGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGGTCCCTTCGT
261 GAAGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGATCCCTTCGT
*
319137 CGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
326 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
* *
319202 AAATTAGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
391 AAATTAGGAAATTGTTTATTGACAACAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTCGTCT
319267 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACA
456 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACA
* *
319332 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTTCGTTGTCTGGAGTCCAATAT
521 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
* * * *
319385 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCTTTCGCTGTGAAGTTAAAATT
1 CCTTCGTAGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
* *
319450 AGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
66 AGCTCTGAAATTGAGAAGTTGTTTATTGACAACAAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
*
319515 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG-AATTGGGAAGTTGTTT
131 GTCGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT
* *
319579 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTT
196 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTC
** *
319644 GTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGATCCCTTCGT
261 GAAGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGATCCCTTCGT
319709 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
326 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
* *
319774 AAATTGGGAAGTTGTTTATTGACAACAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTCGTCT
391 AAATTAGGAAATTGTTTATTGACAACAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTCGTCT
* * *
319839 GGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
456 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACA
319904 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
521 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
*
319957 CCTTCGAAGTGAAGTTGAA
1 CCTTCGTAGTGAAGTTGAA
319976 ATTGGCTCTG
Statistics
Matches: 560, Mismatches: 31, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
572 395 0.71
573 165 0.29
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (573 bp):
CCTTCGTAGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
AGCTCTGAAATTGAGAAGTTGTTTATTGACAACAAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
GTCGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT
ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTC
GAAGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGATCCCTTCGT
CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
AAATTAGGAAATTGTTTATTGACAACAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTCGTCT
GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATAT
Found at i:320293 original size:43 final size:43
Alignment explanation
Indices: 320232--320333 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 43
320222 ACCAGCGGTC
*
320232 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* *
320275 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* *
320318 CTTTCGCTGTGAAGTT
1 CCTTCGTTGTGAAGTT
320334 AAAATTAGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.39
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:320331 original size:149 final size:149
Alignment explanation
Indices: 320126--320442 Score: 544
Period size: 149 Copynumber: 2.1 Consensus size: 149
320116 ACCAGCGGTC
* *
320126 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
* *
320191 GGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 AGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
320256 GTTGTCTGGAGTCCAATAT
131 GTTGTCTGGAGTCCAATAT
* * *
320275 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCTTTCGCTGTGAAGTTAAAATT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
* *
320340 AGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
66 AGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
320405 GTTGTCTGGAGTCCAATAT
131 GTTGTCTGGAGTCCAATAT
*
320424 CCTTCGCTGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
320443 ATTGGCTCTG
Statistics
Matches: 158, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 158 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (149 bp):
CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
AGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
GTTGTCTGGAGTCCAATAT
Found at i:320385 original size:106 final size:106
Alignment explanation
Indices: 320275--320840 Score: 934
Period size: 106 Copynumber: 5.3 Consensus size: 106
320265 AGTCCAATAT
* * * * *
320275 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCTTTCGCTGTGAAGTTAAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * * *
320340 AGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTC
66 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
320381 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
320446 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
*
320487 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* *
320552 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCTGCGGTC
66 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
* *
320593 CATTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* *
320658 GGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
320699 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* **
320764 GGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCCATC
66 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
* * *
320805 CCTTCATCGTGAAGTTGAACTTGTGTTGTCTCGAGT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
320841 GGCATGATAT
Statistics
Matches: 434, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 434 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
GGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTC
Found at i:320654 original size:255 final size:253
Alignment explanation
Indices: 320020--320552 Score: 778
Period size: 255 Copynumber: 2.1 Consensus size: 253
320010 ACCAGCGGTC
* * * ** * * * * * *
320020 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTTGTGAAGTTGAAATTGTGTTGAATTGAGTCAAATATCTTTCCCTGCG-AGTTAAAATT
* * * * * *
320085 GGCTCTGAAATTAGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
65 AGCTCTGAAATTA-GAACTTGGTTGTTGACAACCAACAGTCCCTTCGTCGTGAAGTTGAACTTGC
320150 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
129 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
320215 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
194 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* ** * * *
320275 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCTTTCGCTGTGAAGTTAAAATT
1 CCTTCGTTGTGAAGTTGAAATTGTGTTGAATTGAGTCAAATATCTTTCCCTGCG-AGTTAAAATT
* * *
320340 AGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
65 AGCTCTGAAATT-AGAACTTGGTTGTTGACAACCAACAGTCCCTTCGTCGTGAAGTTGAACTTGC
* *
320405 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT
129 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTT
320470 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
194 ATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
320530 CCTTCGTTGTGAAGTTGAAATTG
1 CCTTCGTTGTGAAGTTGAAATTG
320553 GCTCTGAAAT
Statistics
Matches: 265, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
255 264 1.00
256 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (253 bp):
CCTTCGTTGTGAAGTTGAAATTGTGTTGAATTGAGTCAAATATCTTTCCCTGCGAGTTAAAATTA
GCTCTGAAATTAGAACTTGGTTGTTGACAACCAACAGTCCCTTCGTCGTGAAGTTGAACTTGCGT
TGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTAT
TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:322432 original size:20 final size:20
Alignment explanation
Indices: 322398--322472 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
322388 TTTGTCCCTT
**
322398 TTTCTTTTTGATTTTTGTTC
1 TTTCTTTTTTCTTTTTGTTC
*
322418 TTTCTTTTTTC-TTTTGTTT
1 TTTCTTTTTTCTTTTTGTTC
*
322437 TCTTCTTTTTTGCTTCTT-TTC
1 T-TTCTTTTTT-CTTTTTGTTC
322458 TTT-TTTGTTT-TTTTT
1 TTTCTTT-TTTCTTTTT
322473 CTTTTTGTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 4 0.09
19 11 0.24
20 23 0.51
21 4 0.09
22 3 0.07
ACGTcount: A:0.01, C:0.12, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTCTTTTTTCTTTTTGTTC
Found at i:322461 original size:15 final size:16
Alignment explanation
Indices: 322419--322478 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
322409 TTTTTGTTCT
322419 TTCTTTT-TTCTTTTG-
1 TTCTTTTCTT-TTTTGC
322434 TT-TTCTTCTTTTTTGC
1 TTCTT-TTCTTTTTTGC
*
322450 TTCTTTTCTTTTTTGT
1 TTCTTTTCTTTTTTGC
*
322466 TTTTTTTCTTTTT
1 TTCTTTTCTTTTT
322479 GTTATGATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.05
15 9 0.23
16 26 0.67
17 2 0.05
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (16 bp):
TTCTTTTCTTTTTTGC
Found at i:322462 original size:35 final size:31
Alignment explanation
Indices: 322409--322478 Score: 79
Period size: 35 Copynumber: 2.1 Consensus size: 31
322399 TTCTTTTTGA
*
322409 TTTTTGTTCTTTCTTTTTTCTTTTGTTTTCTTCT
1 TTTTTGTTCTTTCTTTTTT-TGTT-TTTT-TTCT
322443 TTTTTGCTTCTTT-TCTTTTTTGTTTTTTTTCT
1 TTTTTG-TTCTTTCT-TTTTTTGTTTTTTTTCT
322475 TTTT
1 TTTT
322479 GTTATGATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 8 0.24
33 4 0.12
34 10 0.30
35 11 0.33
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (31 bp):
TTTTTGTTCTTTCTTTTTTTGTTTTTTTTCT
Found at i:322464 original size:31 final size:32
Alignment explanation
Indices: 322419--322478 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
322409 TTTTTGTTCT
322419 TTCTTTTTTCTTTTG-TTTTCTTCTTTTTTGC
1 TTCTTTTTTCTTTTGTTTTTCTTCTTTTTTGC
*
322450 TTCTTTTCTT-TTTTGTTTTTTTTCTTTTT
1 TTCTTTT-TTCTTTTGTTTTTCTTCTTTTT
322479 GTTATGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (32 bp):
TTCTTTTTTCTTTTGTTTTTCTTCTTTTTTGC
Found at i:322478 original size:7 final size:7
Alignment explanation
Indices: 322396--322470 Score: 55
Period size: 7 Copynumber: 10.7 Consensus size: 7
322386 TTTTTGTCCC
322396 TTTTTC-
1 TTTTTCT
**
322402 TTTTTGA
1 TTTTTCT
*
322409 TTTTTGT
1 TTTTTCT
*
322416 TCTTTCT
1 TTTTTCT
322423 TTTTTCT
1 TTTTTCT
*
322430 TTTGT-T
1 TTTTTCT
*
322436 TTCTTCT
1 TTTTTCT
322443 TTTTTGCT
1 TTTTT-CT
322451 TCTTTTCT
1 T-TTTTCT
*
322459 TTTTTGT
1 TTTTTCT
322466 TTTTT
1 TTTTT
322471 TTCTTTTTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
6 9 0.16
7 36 0.65
8 6 0.11
9 4 0.07
ACGTcount: A:0.01, C:0.12, G:0.07, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:325879 original size:5 final size:5
Alignment explanation
Indices: 325869--325896 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
325859 GCAAGTGATG
325869 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
325897 GATGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:327791 original size:37 final size:37
Alignment explanation
Indices: 327750--327846 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
327740 GGATCCTATC
*
327750 TTTAGGAGTTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTAAATCCTAGTAGAACTCTATCATATT
* * * * *
327787 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTAAATCCTAGTAGAACTCTATCATATT
327824 TTTAGGAGTTTAAATCCTAGTAG
1 TTTAGGAGTTTAAATCCTAGTAG
327847 GACGAAAAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (37 bp):
TTTAGGAGTTTAAATCCTAGTAGAACTCTATCATATT
Found at i:328019 original size:35 final size:36
Alignment explanation
Indices: 327962--328036 Score: 125
Period size: 35 Copynumber: 2.1 Consensus size: 36
327952 TTGGGCATGC
327962 AATTGAAGTATTTTTGGAATTTGAGGTTTAGAATGT
1 AATTGAAGTATTTTTGGAATTTGAGGTTTAGAATGT
* *
327998 AATTGAAGTA-TTTTGGAATTTGGGGTTTATAATGT
1 AATTGAAGTATTTTTGGAATTTGAGGTTTAGAATGT
328033 AATT
1 AATT
328037 AATGATTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
35 27 0.73
36 10 0.27
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (36 bp):
AATTGAAGTATTTTTGGAATTTGAGGTTTAGAATGT
Found at i:331599 original size:37 final size:36
Alignment explanation
Indices: 331558--331838 Score: 422
Period size: 37 Copynumber: 7.7 Consensus size: 36
331548 CTATTTAATA
* * *
331558 ATATAT-ATAATATTTTTTTAAAACATTTTAAAAAT
1 ATATATAATAATAGTTTTTGAAAACATTTTGAAAAT
*
331593 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAC
1 ATATATAATA-ATAGTTTTTGAAAACATTTTGAAAAT
331630 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAT
1 ATATATAATA-ATAGTTTTTGAAAACATTTTGAAAAT
331667 ATATATAATATATAG-TTTTGAAAACATTTTGAAAAT
1 ATATATAATA-ATAGTTTTTGAAAACATTTTGAAAAT
331703 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAT
1 ATATATAATA-ATAGTTTTTGAAAACATTTTGAAAAT
* *
331740 GTATATAATATATAGTTTTTGAAAACATTTTGAAAAC
1 ATATATAATA-ATAGTTTTTGAAAACATTTTGAAAAT
331777 ATATATAATATATAGTTTTTGAAAACATTTTGAAAAT
1 ATATATAATA-ATAGTTTTTGAAAACATTTTGAAAAT
*
331814 ATATATAATCTATAGTTTTTGAAAA
1 ATATATAAT-AATAGTTTTTGAAAA
331839 TATATAGTCT
Statistics
Matches: 232, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
35 6 0.03
36 39 0.17
37 187 0.81
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (36 bp):
ATATATAATAATAGTTTTTGAAAACATTTTGAAAAT
Found at i:331636 original size:74 final size:74
Alignment explanation
Indices: 331558--331838 Score: 487
Period size: 74 Copynumber: 3.8 Consensus size: 74
331548 CTATTTAATA
* * *
331558 ATATAT-ATA-ATATTTTTTTAAAACATTTTAAAAATATATATAATATATAGTTTTTGAAAACAT
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACAT
331621 TTTGAAAAC
66 TTTGAAAAC
331630 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAG-TTTTGAAAACAT
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACAT
*
331694 TTTGAAAAT
66 TTTGAAAAC
*
331703 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATGTATATAATATATAGTTTTTGAAAACAT
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACAT
331768 TTTGAAAAC
66 TTTGAAAAC
*
331777 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATCTATAGTTTTTGAAAA
1 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAA
331839 TATATAGTCT
Statistics
Matches: 198, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
72 6 0.03
73 74 0.37
74 118 0.60
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (74 bp):
ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACAT
TTTGAAAAC
Found at i:331728 original size:147 final size:144
Alignment explanation
Indices: 331557--331838 Score: 494
Period size: 147 Copynumber: 1.9 Consensus size: 144
331547 GCTATTTAAT
331557 AATATATATAATATTTTTTTAAAACATTTTAAAAATATATATAATATATAGTTTTTGAAAACATT
1 AATATATATAATATTTTTTTAAAACATTTTAAAAATATATATAATATATAGTTTTTGAAAACATT
331622 TTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAG-TTTT
66 TTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTT
331686 GAAAACATTTTGAA
131 GAAAACATTTTGAA
* *
331700 AATATATATAATATATAGTTTTTGAAAACATTTTGAAAATGTATATAATATATAGTTTTTGAAAA
1 AATATATATAATAT-T--TTTTT-AAAACATTTTAAAAATATATATAATATATAGTTTTTGAAAA
*
331765 CATTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATCTATAGT
62 CATTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGT
331830 TTTTGAAAA
127 TTTTGAAAA
331839 TATATAGTCT
Statistics
Matches: 131, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
143 14 0.11
144 1 0.01
146 5 0.04
147 102 0.78
148 9 0.07
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (144 bp):
AATATATATAATATTTTTTTAAAACATTTTAAAAATATATATAATATATAGTTTTTGAAAACATT
TTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTT
GAAAACATTTTGAA
Found at i:331888 original size:54 final size:54
Alignment explanation
Indices: 331783--331892 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 54
331773 AAACATATAT
* * *
331783 AATATATAGTTTTTGAAAACATTTTGAAAATATATATAATCTATAGTTTTTGAA
1 AATATATAGTCTTTGAAAACATTTTGAAAATATAAATAATATATAGTTTTTGAA
*
331837 AATATATAGTCTTTGAAAGCATTTTGAAATATATAAA-ATATATATAG-TTTTGAA
1 AATATATAGTCTTTGAAAACATTTTGAAA-ATATAAATA-ATATATAGTTTTTGAA
331891 AA
1 AA
331893 ACATTTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 37 0.74
55 13 0.26
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.42
Consensus pattern (54 bp):
AATATATAGTCTTTGAAAACATTTTGAAAATATAAATAATATATAGTTTTTGAA
Found at i:331898 original size:38 final size:38
Alignment explanation
Indices: 331838--331946 Score: 114
Period size: 37 Copynumber: 2.9 Consensus size: 38
331828 GTTTTTGAAA
*
331838 ATATATAGTCTTTG-AAAGCATTTTGAAATATATAAAAT
1 ATATATAGT-TTTGAAAAACATTTTGAAATATATAAAAT
* **
331876 ATATATAGTTTTGAAAAACATTTT-AAAAATATATCAT
1 ATATATAGTTTTGAAAAACATTTTGAAATATATAAAAT
* * * *
331913 ATGTATAGATTTCAAAAACGTTTTCGAAATATAT
1 ATATATAGTTTTGAAAAACATTTT-GAAATATAT
331947 TTTATATACT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 34 0.58
38 18 0.31
39 7 0.12
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (38 bp):
ATATATAGTTTTGAAAAACATTTTGAAATATATAAAAT
Found at i:331990 original size:29 final size:29
Alignment explanation
Indices: 331958--332023 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
331948 TTATATACTT
* *
331958 TTTATTATTATTAT-TTATTTGTTTGTTTG
1 TTTATTATTATT-TGTTATTTATTTGTTTA
* *
331987 TTTATTTTTATTTGTTATTTATTTTTTTA
1 TTTATTATTATTTGTTATTTATTTGTTTA
332016 TTT-TTATT
1 TTTATTATT
332024 TAGGTCCAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (29 bp):
TTTATTATTATTTGTTATTTATTTGTTTA
Found at i:332002 original size:14 final size:14
Alignment explanation
Indices: 331983--332024 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
331973 TATTTGTTTG
331983 TTTGTTTATTTTTA
1 TTTGTTTATTTTTA
331997 TTTG-TTA--TTTA
1 TTTGTTTATTTTTA
*
332008 TTTTTTTATTTTTA
1 TTTGTTTATTTTTA
332022 TTT
1 TTT
332025 AGGTCCAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 7 0.29
12 3 0.12
13 3 0.12
14 11 0.46
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (14 bp):
TTTGTTTATTTTTA
Found at i:332002 original size:18 final size:17
Alignment explanation
Indices: 331987--332025 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
331977 TGTTTGTTTG
331987 TTTATTTTTATTTGTTA
1 TTTATTTTTATTTGTTA
332004 TTTATTTTTTTATTT-TTA
1 TTTA--TTTTTATTTGTTA
332022 TTTA
1 TTTA
332026 GGTCCAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
19 9 0.45
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTGTTA
Found at i:332537 original size:23 final size:24
Alignment explanation
Indices: 332500--332551 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
332490 GAACATTCCT
* *
332500 GAAAAAATCAGAACAC-CAACCAA
1 GAAAAAATCACAACACACAACAAA
332523 GCAAAAAA-CACAACACACAACAAA
1 G-AAAAAATCACAACACACAACAAA
332547 GAAAA
1 GAAAA
332552 CGAAGCATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.65, C:0.25, G:0.08, T:0.02
Consensus pattern (24 bp):
GAAAAAATCACAACACACAACAAA
Found at i:345405 original size:37 final size:37
Alignment explanation
Indices: 345285--345683 Score: 446
Period size: 37 Copynumber: 11.2 Consensus size: 37
345275 ATTTAATAAT
*
345285 ATATATATATATATATA-TTTTT-TAAACATTTTGAAA
1 ATATATATA-ATATATAGTTTTTGAAAACATTTTGAAA
*
345321 ATATATATAATATATAGTTTTTGAAAA-GTTTTG--A
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
345355 ATATATAT-A-ATATAGTTTTTGAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
* *
345390 ACATATATAATATATAGTTTTTTAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
** *
345427 ATATATATTGTATATAGTTTTTTAAAACATTTTGAAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTG-AAA
345465 ATATATATAATATATAG-TTTTGAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
* *
345501 ATATATATAATATATAGTATTTGAGAACATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
*
345538 ACATATATAATATATAGTTTTTG---A-A-----AAA
1 ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
*
345566 A-ATATATAATATATAG-TTTTGAAAATATTTTGTAATA
1 ATATATATAATATATAGTTTTTGAAAACATTTTG-AA-A
*
345603 TATATATATATATAATATAG-TTTTGAAAACATTTTAAAA
1 -ATATATATA-AT-ATATAGTTTTTGAAAACATTTTGAAA
* *
345642 ATATATATAATATATA-ATTTT-AAAACGTTTTTGAAA
1 ATATATATAATATATAGTTTTTGAAAAC-ATTTTGAAA
345678 ATATAT
1 ATATAT
345684 CATATGTATA
Statistics
Matches: 318, Mismatches: 19, Indels: 52
0.82 0.05 0.13
Matches are distributed among these distances:
26 5 0.02
27 15 0.05
28 4 0.01
29 1 0.00
30 1 0.00
32 16 0.05
33 7 0.02
34 10 0.03
35 20 0.06
36 64 0.20
37 115 0.36
38 28 0.09
39 8 0.03
40 4 0.01
41 20 0.06
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTGAAAACATTTTGAAA
Found at i:345560 original size:100 final size:104
Alignment explanation
Indices: 345456--345662 Score: 316
Period size: 100 Copynumber: 2.0 Consensus size: 104
345446 TTTTAAAACA
*
345456 TTTTGAAAAATATATATAATATATAGTTTTGAAAACATTTTG-AA-A-ATATATATA-AT-ATAT
1 TTTTGAAAAAAATATATAATATATAGTTTTGAAAACATTTTGTAATATATATATATATATAATAT
* * *
345516 AGTATTTGAGAACATTTTGAAAACATATATAATATATAGT
66 AGT-TTTGAAAACATTTTAAAAACATATATAATATATAAT
*
345556 TTTTGAAAAAAATATATAATATATAGTTTTGAAAATATTTTGTAATATATATATATATATAATAT
1 TTTTGAAAAAAATATATAATATATAGTTTTGAAAACATTTTGTAATATATATATATATATAATAT
*
345621 AGTTTTGAAAACATTTTAAAAATATATATAATATATAAT
66 AGTTTTGAAAACATTTTAAAAACATATATAATATATAAT
345660 TTT
1 TTT
345663 AAAACGTTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
100 40 0.42
101 2 0.02
102 1 0.01
103 9 0.09
104 37 0.39
105 7 0.07
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.43
Consensus pattern (104 bp):
TTTTGAAAAAAATATATAATATATAGTTTTGAAAACATTTTGTAATATATATATATATATAATAT
AGTTTTGAAAACATTTTAAAAACATATATAATATATAAT
Found at i:345570 original size:25 final size:26
Alignment explanation
Indices: 345530--345590 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
345520 TTTGAGAACA
345530 TTTTGAAAAC-ATATATAATATATAG
1 TTTTGAAAACAATATATAATATATAG
*
345555 TTTTTGAAAAAAATATATAATATATAG
1 -TTTTGAAAACAATATATAATATATAG
345582 TTTTGAAAA
1 TTTTGAAAA
345591 TATTTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (26 bp):
TTTTGAAAACAATATATAATATATAG
Found at i:345578 original size:64 final size:67
Alignment explanation
Indices: 345493--345631 Score: 182
Period size: 64 Copynumber: 2.1 Consensus size: 67
345483 TTTGAAAACA
* *
345493 TTTTG-AAAATATATATAATATATAGTATTTGAGAACATTTTG-AA-A-ACATATATA-AT-ATA
1 TTTTGAAAAAAATATATAATATATAGT-TTTGAAAACATTTTGTAATATACATATATATATAATA
345552 TAG
65 TAG
* *
345555 TTTTTGAAAAAAATATATAATATATAGTTTTGAAAATATTTTGTAATATATATATATATATAATA
1 -TTTTGAAAAAAATATATAATATATAGTTTTGAAAACATTTTGTAATATACATATATATATAATA
345620 TAG
65 TAG
345623 TTTTGAAAA
1 TTTTGAAAA
345632 CATTTTAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
63 18 0.27
64 22 0.33
65 1 0.02
66 8 0.12
67 11 0.17
68 6 0.09
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (67 bp):
TTTTGAAAAAAATATATAATATATAGTTTTGAAAACATTTTGTAATATACATATATATATAATAT
AG
Found at i:345606 original size:26 final size:27
Alignment explanation
Indices: 345530--345590 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
345520 TTTGAGAACA
*
345530 TTTTG-AAAACATATATAATATATAGT
1 TTTTGAAAAAAATATATAATATATAGT
345556 TTTTGAAAAAAATATATAATATATAG-
1 TTTTGAAAAAAATATATAATATATAGT
345582 TTTTGAAAA
1 TTTTGAAAA
345591 TATTTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (27 bp):
TTTTGAAAAAAATATATAATATATAGT
Found at i:345614 original size:43 final size:43
Alignment explanation
Indices: 345566--345659 Score: 131
Period size: 41 Copynumber: 2.2 Consensus size: 43
345556 TTTTGAAAAA
* **
345566 AATATATAATATATAGTTTTGAAAATATTTT-GTAATATATAT
1 AATATATAATATATAGTTTTGAAAACATTTTAAAAATATATAT
345608 -ATATAT-ATAATATAGTTTTGAAAACATTTTAAAAATATATAT
1 AATATATAAT-ATATAGTTTTGAAAACATTTTAAAAATATATAT
345650 AATATATAAT
1 AATATATAAT
345660 TTTAAAACGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
40 2 0.04
41 26 0.58
42 9 0.20
43 6 0.13
44 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (43 bp):
AATATATAATATATAGTTTTGAAAACATTTTAAAAATATATAT
Found at i:345756 original size:3 final size:3
Alignment explanation
Indices: 345735--345817 Score: 130
Period size: 3 Copynumber: 26.7 Consensus size: 3
345725 ATATACTTTT
345735 TTA TTA TTCA TTTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TT-A -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
345783 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
345818 TATTTAGGTC
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
3 68 0.89
4 6 0.08
5 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:348072 original size:26 final size:26
Alignment explanation
Indices: 348043--348099 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
348033 CAAGTATTCG
348043 GCGACGATGGTGGCCGAACATGGTCA
1 GCGACGATGGTGGCCGAACATGGTCA
* *
348069 GCGACGATGGTGGCCGATCATGGTCG
1 GCGACGATGGTGGCCGAACATGGTCA
348095 GCGAC
1 GCGAC
348100 AGTTGGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.19, C:0.25, G:0.40, T:0.16
Consensus pattern (26 bp):
GCGACGATGGTGGCCGAACATGGTCA
Found at i:350597 original size:15 final size:17
Alignment explanation
Indices: 350572--350603 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
350562 ATGGATAGGA
350572 TCCGAACCCGA-CGGGT
1 TCCGAACCCGACCGGGT
350588 TCCG-ACCCGACCGGGT
1 TCCGAACCCGACCGGGT
350604 CGGGATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.16, C:0.41, G:0.31, T:0.12
Consensus pattern (17 bp):
TCCGAACCCGACCGGGT
Found at i:352420 original size:87 final size:87
Alignment explanation
Indices: 352271--352523 Score: 447
Period size: 87 Copynumber: 2.9 Consensus size: 87
352261 CGGTTATGTT
* *
352271 ATAT-TATTTAACCGAAAATATTATCAAGTACAA-AACATATTAGGTAACGCTTATATAATGTAA
1 ATATGTATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAA
*
352334 TAGATAGCGCTTATATAATATA
66 TAGATAGCGCTTATATAATAAA
352356 ATATGTATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAA
1 ATATGTATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAA
352421 TAGATAGCGCTTATATAATAAA
66 TAGATAGCGCTTATATAATAAA
*
352443 ATATGTATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAA
1 ATATGTATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAA
*
352508 TAGGTAGCGCTTATAT
66 TAGATAGCGCTTATAT
352524 TGACCTATTT
Statistics
Matches: 161, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
85 4 0.02
86 27 0.17
87 130 0.81
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (87 bp):
ATATGTATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAA
TAGATAGCGCTTATATAATAAA
Found at i:352633 original size:20 final size:21
Alignment explanation
Indices: 352608--352650 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
352598 AGTTTCGATA
*
352608 TTTTAT-AAAGTGTCGAAACT
1 TTTTATAAAAGTATCGAAACT
*
352628 TTTTATAAAAGTATCGATACT
1 TTTTATAAAAGTATCGAAACT
352649 TT
1 TT
352651 ATGCTTGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (21 bp):
TTTTATAAAAGTATCGAAACT
Found at i:354258 original size:4 final size:4
Alignment explanation
Indices: 354249--354277 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
354239 AATGTCCTTT
354249 CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA C
354278 CAATCTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:355512 original size:33 final size:33
Alignment explanation
Indices: 355475--355540 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
355465 CATCTTAATA
*
355475 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
355508 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
355541 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:355599 original size:21 final size:21
Alignment explanation
Indices: 355574--355624 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
355564 CCCCTTATGC
355574 CTCTCAAGTGTATATTCGACT
1 CTCTCAAGTGTATATTCGACT
* * *
355595 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATATTCGACT
*
355616 CTATCAAGT
1 CTCTCAAGT
355625 TTCTCTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (21 bp):
CTCTCAAGTGTATATTCGACT
Found at i:355625 original size:21 final size:21
Alignment explanation
Indices: 355588--355638 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
355578 CAAGTGTATA
*
355588 TTCGACTCTCTCAAGTTTCTC
1 TTCGACTCTATCAAGTTTCTC
355609 TTCGACTCTATCAAGTTTCTC
1 TTCGACTCTATCAAGTTTCTC
*
355630 TTCAACTCT
1 TTCGACTCT
355639 TGATTGTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.31, G:0.08, T:0.43
Consensus pattern (21 bp):
TTCGACTCTATCAAGTTTCTC
Found at i:358091 original size:20 final size:19
Alignment explanation
Indices: 358045--358105 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
358035 TCCGGCAACG
*
358045 TTTTACGGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
358064 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
*
358085 TTTTACCTGG-TATATCATT
1 TTTTACC-GGTTTTATCATT
358104 TT
1 TT
358106 GGATCGATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 5 0.14
20 25 0.71
21 5 0.14
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:358347 original size:10 final size:10
Alignment explanation
Indices: 358332--358361 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
358322 TTTTAATTTC
358332 TACTAAATTG
1 TACTAAATTG
358342 TACTAAATTG
1 TACTAAATTG
358352 TACTAAATTG
1 TACTAAATTG
358362 AAGGTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (10 bp):
TACTAAATTG
Found at i:367162 original size:146 final size:145
Alignment explanation
Indices: 366878--367145 Score: 340
Period size: 146 Copynumber: 1.8 Consensus size: 145
366868 CGTTTCGCAC
* * * * *
366878 AAAATGGCCAAAAATCGTTCGCCTTCCCGAGCCCGATCTGCCGCCATCCACCGTCGAATCGTCGC
1 AAAATGCCCAAAAATAGTTCGCCTTCCCGAGCCCGATCTACCACCATCCACCGTCGAATCGTCAC
***
366943 CATTTTTCAGTATGTTATTCCTTACCCATTTATCTCCATTTTCATTGTTGGAATTTTCGAACGGA
66 CATTTTTCAGTATGTTATTCCTTACCCATTTATCTCCATTTTCACCATTGGAATTTTCGAACGGA
367008 ACTCTCCACAGTCGG
131 ACTCTCCACAGTCGG
* * * * *
367023 AAAATGCCCGAAAATAGTTCGGCCTTCCCGAGCCTGAAT-TACCACCGTCCACCGTCGGATTGTC
1 AAAATGCCCAAAAATAGTTC-GCCTTCCCGAGCCCG-ATCTACCACCATCCACCGTCGAATCGTC
* * * * * *
367087 ACCGTTTTTTAGTATGTTGTTCCTTACCCCTTTCTCTCCCTTTTCACCATTGGAATTTT
64 ACCATTTTTCAGTATGTTATTCCTTACCCATTTATCTCCATTTTCACCATTGGAATTTT
367146 TGAATGTTGC
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
145 17 0.17
146 83 0.81
147 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (145 bp):
AAAATGCCCAAAAATAGTTCGCCTTCCCGAGCCCGATCTACCACCATCCACCGTCGAATCGTCAC
CATTTTTCAGTATGTTATTCCTTACCCATTTATCTCCATTTTCACCATTGGAATTTTCGAACGGA
ACTCTCCACAGTCGG
Found at i:367453 original size:7 final size:7
Alignment explanation
Indices: 367441--367471 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
367431 ATCATTGTGT
367441 TTTTTTC
1 TTTTTTC
367448 TTTTTT-
1 TTTTTTC
367454 TTTTTTC
1 TTTTTTC
367461 TTTTTTC
1 TTTTTTC
367468 TTTT
1 TTTT
367472 ACTTTGAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTTC
Found at i:367458 original size:13 final size:13
Alignment explanation
Indices: 367440--367476 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
367430 AATCATTGTG
367440 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
367453 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
* *
367466 TCTTTTACTTT
1 TTTTTTTCTTT
367477 GAACCACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:367705 original size:3 final size:3
Alignment explanation
Indices: 367697--367752 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
367687 TTGGATCTTG
* *
367697 TAA TAA TAA CAA -AA AAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
367742 TAA TAA TAA TA
1 TAA TAA TAA TA
367753 GCGGTAATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:368082 original size:49 final size:48
Alignment explanation
Indices: 367998--368110 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 48
367988 GCTGTTACTC
* *
367998 AGGGAATATCAAATCATGAAGGAGAGGGATCTGTTCCACTT-CTTTCTGA
1 AGGGAATATCAAATCTTGAAGGAGAGAGATCTGTTCCACTTAC--TCTGA
* *
368047 AGGGAATATCAAATCTTGGA-GA-AGAGATACATGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGAAGGAGAGAGAT-C-TGTTCCACTTACTCTGA
*
368095 AGGGAATATCATATCT
1 AGGGAATATCAAATCT
368111 GGGGGAGTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
47 5 0.09
48 23 0.41
49 27 0.48
50 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (48 bp):
AGGGAATATCAAATCTTGAAGGAGAGAGATCTGTTCCACTTACTCTGA
Found at i:368242 original size:113 final size:113
Alignment explanation
Indices: 368029--368514 Score: 695
Period size: 113 Copynumber: 4.3 Consensus size: 113
368019 GAGAGGGATC
* * *
368029 TGTTCCACTT-CTTTCTGAAGGGAATATCAAATCTTGGAGAAGAGATACATGTTCCGCTTACTCT
1 TGTTCCACTTAC--TCTGAAGGGAATATCAAATCTTGAAAAAGAGAGACATGTTCCGCTTACTCT
* *
368093 GAAGGGAATATCATATCTGGGGGAGTTAATCCATTGAATCGGGGTAGACT
64 GAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGTAGACT
* * *
368143 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTACTCTGA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGACATGTTCCGCTTACTCTGA
* ** *
368208 AGGGAATATCAGATCTGGGGGAGTTGATCAATTGAATCGGGACAAACT
66 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGTAGACT
* * * * *
368256 TGTTCCAGTTACTCTGAAGGGAATACCAAATATTGAAAAAGAGAGACATGTTCCCCGTACTCTGA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGACATGTTCCGCTTACTCTGA
* * *
368321 AGGGAATATCAGATCTAGGGGAGTTGATCCATTGAATCGAGGAAGACT
66 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGTAGACT
*
368369 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGACCTGTTCCGCTTACTCTGA
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGACATGTTCCGCTTACTCTGA
* * *
368434 AGGGAATATCAGATATGAGGGAGTTGATCCATTGAATCGGGGTAGAAT
66 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGTAGACT
* * * *
368482 AGTTCTACTTACTCTAAAGAGAATATCAAATCT
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCT
368515 GGGGGAGTTG
Statistics
Matches: 333, Mismatches: 38, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
113 322 0.97
114 10 0.03
115 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (113 bp):
TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAAAAGAGAGACATGTTCCGCTTACTCTGA
AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGTAGACT
Found at i:368578 original size:65 final size:65
Alignment explanation
Indices: 368412--368579 Score: 203
Period size: 65 Copynumber: 2.6 Consensus size: 65
368402 TGAAAAAGAG
* * * * * * * *
368412 AGACCTGTTCCGCTTACTCTGAAGGGAATATCAGATATGAGGGAGTTGATCCATTGAATCGGGGT
1 AGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTGAGGGAGTTGATCCATTCAATCAGGGA
* * * *
368477 AGAATAGTTCTACTTACTCT-AAAGAGAATATCAAATCTGGGGGAGTTGATCCATTCAATCAGGG
1 AGACTTGTTCCACTTACTCTGAAAG-GAATATCAAATCTGAGGGAGTTGATCCATTCAATCAGGG
368541 A
65 A
*
368542 AGACTTGTTCCACTTACTCTGAAAGGAATAACAAATCT
1 AGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCT
368580 TAGAAAAGAG
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
64 3 0.04
65 78 0.92
66 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (65 bp):
AGACTTGTTCCACTTACTCTGAAAGGAATATCAAATCTGAGGGAGTTGATCCATTCAATCAGGGA
Found at i:376501 original size:22 final size:22
Alignment explanation
Indices: 376475--376518 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
376465 CCGATCTATC
376475 ATACCTTGAAGCAATCGATTCT
1 ATACCTTGAAGCAATCGATTCT
376497 ATACCTTGAAGCAATCGATTCT
1 ATACCTTGAAGCAATCGATTCT
376519 TACTCCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (22 bp):
ATACCTTGAAGCAATCGATTCT
Found at i:379028 original size:113 final size:113
Alignment explanation
Indices: 378861--379330 Score: 673
Period size: 113 Copynumber: 4.2 Consensus size: 113
378851 CGCTTCTTTT
*
378861 TGAAGGGAGTATCAAATCTTGGAG-AAGAGATACATGTTCCGCTTACTCTGAAGGGAATATCATA
1 TGAAGGGAATATCAAATCTTGGAGAAAGAGAT-CATGTTCCGCTTACTCTGAAGGGAATATCATA
*
378925 TATGGGGGAGTTAATCCATTGAATCGGGGTAGACTTGTTCCACTTACTC
65 TATGGGGGAGTTAATCCATTGAATCGGGGAAGACTTGTTCCACTTACTC
**
378974 TGAAGGGAATATCAAATCTTGGAGAATAGAGATC-TGTTATGCTTACTCTGAAGGGAATATCATA
1 TGAAGGGAATATCAAATCTTGGAGAA-AGAGATCATGTTCCGCTTACTCTGAAGGGAATATCATA
* * * *
379038 TCTTGGGGAGTTGAA-CCATTGAATCGGGGAAGACTTATTCCACTTACTT
65 TATGGGGGAGTT-AATCCATTGAATCGGGGAAGACTTGTTCCACTTACTC
* *
379087 TGAAGGGAATATCAAATCTT-GAAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCATA
1 TGAAGGGAATATCAAATCTTGGAGAAAGAGA-TCATGTTCCGCTTACTCTGAAGGGAATATCATA
* * * *
379151 TCTAGGGGAGTTGATCCATTGAATCGAGGAAGACTTGTTCCACTTACTC
65 TATGGGGGAGTTAATCCATTGAATCGGGGAAGACTTGTTCCACTTACTC
* * *
379200 TGAAGGGAATATCAAATCTTGGA-AAAGAGAAACATGTTCTGCTTACTCTGAA-GGAATATCAGA
1 TGAAGGGAATATCAAATCTTGGAGAAAGAG-ATCATGTTCCGCTTACTCTGAAGGGAATATCATA
* *
379263 TATGGGGGAGTTGATCCATTGAATCGGGGTAGACTTGTTCCACTTACTC
65 TATGGGGGAGTTAATCCATTGAATCGGGGAAGACTTGTTCCACTTACTC
*
379312 TGAAGAGAATATCAAATCT
1 TGAAGGGAATATCAAATCT
379331 AGGGGAGTTG
Statistics
Matches: 325, Mismatches: 24, Indels: 17
0.89 0.07 0.05
Matches are distributed among these distances:
111 5 0.02
112 79 0.24
113 228 0.70
114 7 0.02
115 6 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (113 bp):
TGAAGGGAATATCAAATCTTGGAGAAAGAGATCATGTTCCGCTTACTCTGAAGGGAATATCATAT
ATGGGGGAGTTAATCCATTGAATCGGGGAAGACTTGTTCCACTTACTC
Found at i:379334 original size:177 final size:178
Alignment explanation
Indices: 379116--379441 Score: 555
Period size: 177 Copynumber: 1.8 Consensus size: 178
379106 TGAAAAAGAG
* * *
379116 AGACATGTTCCGCTTACTCTGAAGGGAATATCATATCTAGGGGAGTTGATCCATTGAATCGAGGA
1 AGACATGTTCCACTTACTCTGAAGAGAATATCAAATCTAGGGGAGTTGATCCATTGAATCGAGGA
379181 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAAACATGTTCTGCTTAC
66 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAAACATGTTCTGCTTAC
379246 TCTG-AAGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGGGGT
131 TCTGTAAGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGGGGT
* * *
379293 AGACTTGTTCCACTTACTCTGAAGAGAATATCAAATCTAGGGGAGTTGATCCATTGAATCGGGGC
1 AGACATGTTCCACTTACTCTGAAGAGAATATCAAATCTAGGGGAGTTGATCCATTGAATCGAGGA
* * *
379358 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGACTTGTTCTGCTTTC
66 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAAACATGTTCTGCTTAC
*
379423 TCTGTAGGGAATATCAGAT
131 TCTGTAAGGAATATCAGAT
379442 TTGTTCAAAC
Statistics
Matches: 138, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
177 125 0.91
178 13 0.09
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (178 bp):
AGACATGTTCCACTTACTCTGAAGAGAATATCAAATCTAGGGGAGTTGATCCATTGAATCGAGGA
AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAAACATGTTCTGCTTAC
TCTGTAAGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGGGGT
Found at i:379340 original size:65 final size:64
Alignment explanation
Indices: 379241--379395 Score: 256
Period size: 65 Copynumber: 2.4 Consensus size: 64
379231 ACATGTTCTG
* * * *
379241 CTTACTCTGAAGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGGGGTAGACTTGTTCCA
1 CTTACTCTGAAGGAATATCAAATCTAGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCA
379305 CTTACTCTGAAGAGAATATCAAATCTAGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCA
1 CTTACTCTGAAG-GAATATCAAATCTAGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCA
379370 CTTACTCTGAAGGGAATATCAAATCT
1 CTTACTCTGAA-GGAATATCAAATCT
379396 TGGAAAAGAG
Statistics
Matches: 85, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
64 12 0.14
65 72 0.85
66 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (64 bp):
CTTACTCTGAAGGAATATCAAATCTAGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCA
Found at i:388734 original size:20 final size:20
Alignment explanation
Indices: 388709--388754 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
388699 GTGCCACTCC
*
388709 GTCGCTGTCGATCGTCGCCG
1 GTCGCTGCCGATCGTCGCCG
388729 GTCGCTGCCGATCGTCGCCG
1 GTCGCTGCCGATCGTCGCCG
*
388749 ATCGCT
1 GTCGCT
388755 ACCGTCTCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.07, C:0.37, G:0.33, T:0.24
Consensus pattern (20 bp):
GTCGCTGCCGATCGTCGCCG
Found at i:389154 original size:146 final size:145
Alignment explanation
Indices: 388861--389154 Score: 405
Period size: 145 Copynumber: 2.0 Consensus size: 145
388851 CGTTTCGCAC
* * *
388861 AAAATGGCCAAAAACCATTCGGCCTTCCTGAGCCCGATCTGTCGCTGTCCACCGTCGGATCGTCG
1 AAAATGGCCAAAAACCATTCGGCCTTCCTGAGCCCGATCTGACGCCGTCCACCGTCGGATCGTCA
* * *
388926 CCGTTTTTCAGTATGTTGTTTTTACCCCTTTCAATCCCTTTTCACCATTGGATTTTTCGAACGGA
66 CCGTTTTTCACTATGTTGTTCTTACCCCTTTCAATCCCTTTTCACCATTGGAATTTTCGAACGGA
*
388991 GCTCTCCACAGCCAG
131 GATCTCCACAGCCAG
* * **
389006 AAAATGGCCAAAAACCGTTCGGCCTTCCTGAGCTCGAAT-T-ACAGCCGTCCTTCGTCGGATCGT
1 AAAATGGCCAAAAACCATTCGGCCTTCCTGAGCCCG-ATCTGAC-GCCGTCCACCGTCGGATCGT
* **
389069 CACCGTTTTTTACTATGTTGTTCCTTACCCCTTTCTCTCCCTTTTCACCATTGGAATTTTCGAAC
64 CACCGTTTTTCACTATGTTGTT-CTTACCCCTTTCAATCCCTTTTCACCATTGGAATTTTCGAAC
389134 GGAGATCTCCACCA-CCAG
128 GGAGATCTCCA-CAGCCAG
389152 AAA
1 AAA
389155 CGATGTCGGT
Statistics
Matches: 131, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
144 1 0.01
145 71 0.54
146 57 0.44
147 2 0.02
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (145 bp):
AAAATGGCCAAAAACCATTCGGCCTTCCTGAGCCCGATCTGACGCCGTCCACCGTCGGATCGTCA
CCGTTTTTCACTATGTTGTTCTTACCCCTTTCAATCCCTTTTCACCATTGGAATTTTCGAACGGA
GATCTCCACAGCCAG
Found at i:394172 original size:29 final size:29
Alignment explanation
Indices: 394140--394206 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
394130 TAATATATTA
394140 TTTATTGCATATTAACCACTAACTTTTAT
1 TTTATTGCATATTAACCACTAACTTTTAT
*
394169 TTTATTGCATATTAACTACTAACTTTTAT
1 TTTATTGCATATTAACCACTAACTTTTAT
394198 TTTATTGCA
1 TTTATTGCA
394207 CTCTAACCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTATTGCATATTAACCACTAACTTTTAT
Found at i:394213 original size:29 final size:29
Alignment explanation
Indices: 394140--394215 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
394130 TAATATATTA
*
394140 TTTATTGCATATTAACCACTAACTTTTAT
1 TTTATTGCATACTAACCACTAACTTTTAT
* *
394169 TTTATTGCATATTAACTACTAACTTTTAT
1 TTTATTGCATACTAACCACTAACTTTTAT
394198 TTTATTGCACT-CTAACCA
1 TTTATTGCA-TACTAACCA
394216 TTATTTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 42 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.47
Consensus pattern (29 bp):
TTTATTGCATACTAACCACTAACTTTTAT
Found at i:394435 original size:16 final size:15
Alignment explanation
Indices: 394416--394461 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
394406 CTCTGTTAAT
394416 CGCTAACTCTACTAAC
1 CGCTAACT-TACTAAC
*
394432 CGCTAACATTTCTAAC
1 CGCTAAC-TTACTAAC
394448 CGCTAA-TTACTAAC
1 CGCTAACTTACTAAC
394462 TACTAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 7 0.26
16 19 0.70
17 1 0.04
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.28
Consensus pattern (15 bp):
CGCTAACTTACTAAC
Found at i:394525 original size:16 final size:16
Alignment explanation
Indices: 394500--394535 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
394490 ATTTCTTCTA
*
394500 TTTAACTTTATGCACT
1 TTTAAATTTATGCACT
*
394516 TTTAAATTTATGCATT
1 TTTAAATTTATGCACT
394532 TTTA
1 TTTA
394536 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:397654 original size:29 final size:29
Alignment explanation
Indices: 397616--397691 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
397606 TGCTATATTA
397616 TTTATTGCATATTAACCACTAACTTTTAT
1 TTTATTGCATATTAACCACTAACTTTTAT
* *
397645 TTTATTGCATATTAACTACTGACTTTTAT
1 TTTATTGCATATTAACCACTAACTTTTAT
*
397674 TTTATAGCACTA-TAACCA
1 TTTATTGCA-TATTAACCA
397692 TTGTTTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 40 0.95
30 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTATTGCATATTAACCACTAACTTTTAT
Found at i:397878 original size:130 final size:134
Alignment explanation
Indices: 397657--397925 Score: 366
Period size: 130 Copynumber: 2.0 Consensus size: 134
397647 TATTGCATAT
*
397657 TAACTACTGACTTTTATTTTATAGCACTATAACCATTGTTTATTTATTTATTTATTTATTGTTTC
1 TAACTACTGACTTTTATTTTATAGCACTATAA-CATTGATTATTTATTTATTTATTTATTGTTTC
* * *
397722 TATTATTCGATTCGACATTGTGGTGACCAAATATGGGGTATGGTCCACATTATTGTGGTTC-GAC
65 TATTATTCGATTCGACATTGTGGTGACCAAATACGGGGTATGATCCACATTATTATGGTTCGGAC
*
397786 TCTGC
130 CCTGC
* * * *
397791 TAACTACTGATTTTTATTTTATTGCACT-TTA-ATT-ATTGTTTATTTATTTATTTATTGTTTCT
1 TAACTACTGACTTTTATTTTATAGCACTATAACATTGATTATTTATTTATTTATTTATTGTTTCT
* * * * * *
397853 ATTGTTTGTTTCGACCTTGTGGTGACCAGATCCGGGGTATGATCCACATTATTATGGTTCGGACC
66 ATTATTCGATTCGACATTGTGGTGACCAAATACGGGGTATGATCCACATTATTATGGTTCGGACC
397918 CTGC
131 CTGC
397922 TAAC
1 TAAC
397926 CACTAACTCT
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
130 77 0.65
131 14 0.12
133 2 0.02
134 26 0.22
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.46
Consensus pattern (134 bp):
TAACTACTGACTTTTATTTTATAGCACTATAACATTGATTATTTATTTATTTATTTATTGTTTCT
ATTATTCGATTCGACATTGTGGTGACCAAATACGGGGTATGATCCACATTATTATGGTTCGGACC
CTGC
Found at i:398150 original size:16 final size:16
Alignment explanation
Indices: 398125--398160 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
398115 ATTTAAGCTA
*
398125 TTTAACTTTATGCACT
1 TTTAAATTTATGCACT
*
398141 TTTAAATTTATGCATT
1 TTTAAATTTATGCACT
398157 TTTA
1 TTTA
398161 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:399026 original size:16 final size:17
Alignment explanation
Indices: 399000--399037 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
398990 ACGCAGACCA
399000 ATTTTTATCTTAAAATT
1 ATTTTTATCTTAAAATT
399017 ATTTTT-TCTTAAAATT
1 ATTTTTATCTTAAAATT
*
399033 GTTTT
1 ATTTT
399038 AAAGTACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTTTATCTTAAAATT
Found at i:401612 original size:42 final size:41
Alignment explanation
Indices: 401558--401678 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 41
401548 TGTTAACAAA
*
401558 AAACGCCGCAATAGGTAAGGATATATAGCAACGTTTGTCAAC
1 AAACGCCGCAATAGGTAACGATATATAGC-ACGTTTGTCAAC
* ** *
401600 AAACGCCGCAATAGGTGATAATATATAGC-GGTTTGTTCAAC
1 AAACGCCGCAATAGGTAACGATATATAGCACGTTTG-TCAAC
* ** * *
401641 ACACGTAGCAATATGTAACGATATTTAGCAGCGTTTGT
1 AAACGCCGCAATAGGTAACGATATATAGCA-CGTTTGT
401679 ATTACAAACG
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
40 5 0.08
41 26 0.41
42 27 0.43
43 5 0.08
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (41 bp):
AAACGCCGCAATAGGTAACGATATATAGCACGTTTGTCAAC
Found at i:401635 original size:40 final size:42
Alignment explanation
Indices: 401544--401678 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 42
401534 AAGTTCGCGG
* *
401544 CGTTTGTTAACAAAAAACGCCGCAATAGGTAAGGATATATAGCAA
1 CGTTTGTT--CAACAAACGCCGCAATAGGTAAGAATATATAGC-A
* *
401589 CGTTTG-TCAACAAACGCCGCAATAGGTGATAATATATAGC-
1 CGTTTGTTCAACAAACGCCGCAATAGGTAAGAATATATAGCA
* * ** * *
401629 GGTTTGTTCAACACACGTAGCAATATGTAACG-ATATTTAGCA
1 CGTTTGTTCAACAAACGCCGCAATAGGTAA-GAATATATAGCA
401671 GCGTTTGT
1 -CGTTTGT
401679 ATTACAAACG
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
40 5 0.07
41 26 0.36
42 29 0.40
43 6 0.08
44 1 0.01
45 6 0.08
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (42 bp):
CGTTTGTTCAACAAACGCCGCAATAGGTAAGAATATATAGCA
Found at i:401782 original size:43 final size:43
Alignment explanation
Indices: 401690--401799 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
401680 TTACAAACGT
* *
401690 CACAATAGGTCTTGATATTTAGCGACGTTTTTCCTAAAAAGGC
1 CACAATAGGTGTTGAGATTTAGCGACGTTTTTCCTAAAAAGGC
* * * * * *
401733 CGCAATAGGTGTTGAGATTTAGTGGCGTTTTT-ATCATAAATGC
1 CACAATAGGTGTTGAGATTTAGCGACGTTTTTCCT-AAAAAGGC
* *
401776 CACAATAAGTGTTAAGATTTAGCG
1 CACAATAGGTGTTGAGATTTAGCG
401800 GCATTCTTCT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (43 bp):
CACAATAGGTGTTGAGATTTAGCGACGTTTTTCCTAAAAAGGC
Found at i:401912 original size:44 final size:44
Alignment explanation
Indices: 401812--401999 Score: 191
Period size: 44 Copynumber: 4.3 Consensus size: 44
401802 ATTCTTCTCG
* * * *
401812 CAAACGCCGCTAAAGGTAAGGTATGT-GCGGTGTTTTTAGGATA
1 CAAACGCCGCTAAAGGTATGGTATATAGCAGCGTTTTTAGGATA
* *
401855 TAAACGCCTCTAAAGGTATGGTATATAGCAGCGTTTTTAGGATA
1 CAAACGCCGCTAAAGGTATGGTATATAGCAGCGTTTTTAGGATA
* * * * **
401899 CAAACACCACTAAAGGTCTGATATATAGTTGCGTTTTTAGGATA
1 CAAACGCCGCTAAAGGTATGGTATATAGCAGCGTTTTTAGGATA
* * * * * *
401943 CAAACGCCGCTAAATGTATGGTATATTGCGGCATTTTT-TGTTA
1 CAAACGCCGCTAAAGGTATGGTATATAGCAGCGTTTTTAGGATA
*
401986 CAAACGCTGCTAAA
1 CAAACGCCGCTAAA
402000 TAACACATAA
Statistics
Matches: 119, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
43 38 0.32
44 81 0.68
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (44 bp):
CAAACGCCGCTAAAGGTATGGTATATAGCAGCGTTTTTAGGATA
Found at i:409872 original size:40 final size:40
Alignment explanation
Indices: 409817--409905 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
409807 ATCTAAGTTT
*
409817 GCGGCGTTTTAAAAAAACGCCTCTATACTACCGATATATC
1 GCGGCGTTTTAAAAAAACGCCTCTATACTACAGATATATC
* * *
409857 GCGGCGTTTTAAAAAAACGCCTCTATAGTGCAGATATATT
1 GCGGCGTTTTAAAAAAACGCCTCTATACTACAGATATATC
409897 GCGGCGTTT
1 GCGGCGTTT
409906 GGGTAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (40 bp):
GCGGCGTTTTAAAAAAACGCCTCTATACTACAGATATATC
Found at i:409956 original size:83 final size:82
Alignment explanation
Indices: 409869--410173 Score: 215
Period size: 83 Copynumber: 3.7 Consensus size: 82
409859 GGCGTTTTAA
409869 AAAAACGCCTCTATAGTGCAGATATATTGCGGCGTTTGGGTAAAAAACGCCACTATTATTCAACT
1 AAAAACGCCTCTATA-TGCAGATATATTGCGGCGTTTGGGTAAAAAACGCCACTATTATTCAACT
* *
409934 CTATTGAGGCATTTGTAG
65 CTATTGCGACATTTGTAG
* * * * * *** * * **
409952 AAAAAGGCATGTATTATTCA-ACTCTATTGCGGCGTTTACATAACAAACGCCTCTA-TACTTCCG
1 AAAAACGCCTCTA-TATGCAGA-TATATTGCGGCGTTTGGGTAAAAAACGCCACTATTA-TTCAA
* * * * *
410015 TTATATCGCGACCTTT-TCAA
63 CTCTATTGCGACATTTGT-AG
* * * *
410035 AAAAATGCCTCTAT-TGCATAGATATATCGCGGTGTTTGGGTAAAAAACGCCACTATTGTTCAAC
1 AAAAACGCCTCTATATGC--AGATATATTGCGGCGTTTGGGTAAAAAACGCCACTATTATTCAAC
410099 TCTATTGCGACATTTGTAG
64 TCTATTGCGACATTTGTAG
* * * * *** *
410118 AAAAACACCTTTATTATTCA-ACTCTATTGCGGCGTTTACATAACAAACGCCACTAT
1 AAAAACGCCTCTA-TATGCAGA-TATATTGCGGCGTTTGGGTAAAAAACGCCACTAT
410174 AGATTACACC
Statistics
Matches: 160, Mismatches: 50, Indels: 24
0.68 0.21 0.10
Matches are distributed among these distances:
81 2 0.01
82 6 0.04
83 144 0.90
84 6 0.04
85 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (82 bp):
AAAAACGCCTCTATATGCAGATATATTGCGGCGTTTGGGTAAAAAACGCCACTATTATTCAACTC
TATTGCGACATTTGTAG
Found at i:410104 original size:166 final size:164
Alignment explanation
Indices: 409815--410174 Score: 512
Period size: 166 Copynumber: 2.2 Consensus size: 164
409805 TAATCTAAGT
* *
409815 TTGCGGCGTTTTA-A-AA-AAACGCCTCTATACTACCGATATATCGCGGCGTTTTAAAAAAACGC
1 TTGCGGCG-TTTACATAACAAACGCCTCTATACTACCGATATATCGCGACCTTTTAAAAAAACGC
*
409877 CTCTATAGTGCAGATATATTGCGGCGTTTGGGTAAAAAACGCCACTATTATTCAACTCTATTGAG
65 CTCTATA-TGCAGATATATCGCGGCGTTTGGGTAAAAAACGCCACTATTATTCAACTCTATTGAG
* **
409942 GCATTTGTAGAAAAAGGCATGTATTATTCAACTCTA
129 ACATTTGTAGAAAAACACATGTATTATTCAACTCTA
* * *
409978 TTGCGGCGTTTACATAACAAACGCCTCTATACTTCCGTTATATCGCGACCTTTTCAAAAAAATGC
1 TTGCGGCGTTTACATAACAAACGCCTCTATACTACCGATATATCGCGACCTTTT-AAAAAAACGC
* * *
410043 CTCTAT-TGCATAGATATATCGCGGTGTTTGGGTAAAAAACGCCACTATTGTTCAACTCTATTGC
65 CTCTATATGC--AGATATATCGCGGCGTTTGGGTAAAAAACGCCACTATTATTCAACTCTATTGA
* *
410107 GACATTTGTAGAAAAACACCTTTATTATTCAACTCTA
128 GACATTTGTAGAAAAACACATGTATTATTCAACTCTA
*
410144 TTGCGGCGTTTACATAACAAACGCCACTATA
1 TTGCGGCGTTTACATAACAAACGCCTCTATA
410175 GATTACACCT
Statistics
Matches: 176, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
162 4 0.02
163 9 0.05
164 5 0.03
165 32 0.18
166 126 0.72
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (164 bp):
TTGCGGCGTTTACATAACAAACGCCTCTATACTACCGATATATCGCGACCTTTTAAAAAAACGCC
TCTATATGCAGATATATCGCGGCGTTTGGGTAAAAAACGCCACTATTATTCAACTCTATTGAGAC
ATTTGTAGAAAAACACATGTATTATTCAACTCTA
Found at i:410123 original size:41 final size:41
Alignment explanation
Indices: 410077--410256 Score: 161
Period size: 41 Copynumber: 4.3 Consensus size: 41
410067 TGTTTGGGTA
* * ** *
410077 AAAAACGCCACTATTGTTCAACTCTATTGCGACATTTGTAG
1 AAAAACGCCACTATTATTCAACTCTATTGCGGCATTTACAT
* ** *
410118 AAAAACACCTTTATTATTCAACTCTATTGCGGCGTTTACAT
1 AAAAACGCCACTATTATTCAACTCTATTGCGGCATTTACAT
* *
410159 AACAAACGCCACTATAGATT-ACAC-CTATTGCGGCGTTGGTAC--
1 AA-AAACGCCACTAT-TATTCA-ACTCTATTGCGGCATT--TACAT
* *
410201 AAAAACGCCGCTAATATTCAACTCTATTGCGGCATTTACAT
1 AAAAACGCCACTATTATTCAACTCTATTGCGGCATTTACAT
410242 AACAAACGCCACTAT
1 AA-AAACGCCACTAT
410257 AGATTACACC
Statistics
Matches: 110, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
39 3 0.03
40 5 0.05
41 59 0.54
42 35 0.32
43 5 0.05
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (41 bp):
AAAAACGCCACTATTATTCAACTCTATTGCGGCATTTACAT
Found at i:410187 original size:83 final size:82
Alignment explanation
Indices: 410079--410286 Score: 285
Period size: 83 Copynumber: 2.5 Consensus size: 82
410069 TTTGGGTAAA
* * * ** *
410079 AAACGCCACTATTG-TT-CAACTCTATTGCGACATTTGTAGAAAAACACCTTTATTATTCAACTC
1 AAACGCCACTATAGATTAC-AC-CTATTGCGGCGTTTGTA-AAAAACACCGCTAATATTCAACTC
*
410142 TATTGCGGCGTTTACATAAC
63 TATTGCGGCATTTACATAAC
* *
410162 AAACGCCACTATAGATTACACCTATTGCGGCGTTGGTACAAAAACGCCGCTAATATTCAACTCTA
1 AAACGCCACTATAGATTACACCTATTGCGGCGTTTGTA-AAAAACACCGCTAATATTCAACTCTA
410227 TTGCGGCATTTACATAAC
65 TTGCGGCATTTACATAAC
410245 AAACGCCACTATAGATTACACCTATTGCGGCGTTTGTAAAAA
1 AAACGCCACTATAGATTACACCTATTGCGGCGTTTGTAAAAA
410287 CACGCCGTTA
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
82 4 0.04
83 103 0.92
84 4 0.04
85 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (82 bp):
AAACGCCACTATAGATTACACCTATTGCGGCGTTTGTAAAAAACACCGCTAATATTCAACTCTAT
TGCGGCATTTACATAAC
Found at i:410292 original size:83 final size:83
Alignment explanation
Indices: 410132--410298 Score: 291
Period size: 83 Copynumber: 2.0 Consensus size: 83
410122 ACACCTTTAT
*
410132 TATTCAACTCTATTGCGGCGTTTACATAACAAACGCCACTATAGATTACACCTATTGCGGCGTTG
1 TATTCAACTCTATTGCGGCATTTACATAACAAACGCCACTATAGATTACACCTATTGCGGCGTTG
410197 GTACAAAAACGCCGCTAA
66 GTACAAAAACGCCGCTAA
*
410215 TATTCAACTCTATTGCGGCATTTACATAACAAACGCCACTATAGATTACACCTATTGCGGCGTTT
1 TATTCAACTCTATTGCGGCATTTACATAACAAACGCCACTATAGATTACACCTATTGCGGCGTTG
*
410280 GTA-AAAACACGCCGTTAA
66 GTACAAAA-ACGCCGCTAA
410298 T
1 T
410299 GTATAAATAT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
82 4 0.05
83 76 0.95
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (83 bp):
TATTCAACTCTATTGCGGCATTTACATAACAAACGCCACTATAGATTACACCTATTGCGGCGTTG
GTACAAAAACGCCGCTAA
Found at i:411386 original size:22 final size:22
Alignment explanation
Indices: 411361--411405 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
411351 TTCAGAAGTT
411361 ATTATTTCCCTATTCGAAAGCA
1 ATTATTTCCCTATTCGAAAGCA
**
411383 ATTATTTTTCTATTCGAAAGCA
1 ATTATTTCCCTATTCGAAAGCA
411405 A
1 A
411406 AAAACACTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (22 bp):
ATTATTTCCCTATTCGAAAGCA
Found at i:414489 original size:11 final size:11
Alignment explanation
Indices: 414420--414492 Score: 56
Period size: 11 Copynumber: 6.2 Consensus size: 11
414410 AAGGAGAGAG
* *
414420 AAAAATATTAG
1 AAAAATAATAA
*
414431 AAAACTAATAA
1 AAAAATAATAA
*
414442 AAAAATTAAAGAA
1 AAAAA-T-AATAA
414455 AAAATATGAATAA
1 AAAA-AT-AATAA
*
414468 AGAAAAAAATAA
1 A-AAAATAATAA
414480 AAAAATAATAA
1 AAAAATAATAA
414491 AA
1 AA
414493 TTGAGTGAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
11 23 0.47
12 7 0.14
13 15 0.31
14 4 0.08
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:414542 original size:17 final size:16
Alignment explanation
Indices: 414520--414566 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
414510 AAAAATGAAT
414520 AAAATGAAATAAAAAA
1 AAAATGAAATAAAAAA
*
414536 GAAAATGAAA-AAAGAA
1 -AAAATGAAATAAAAAA
*
414552 ATAAT-AAATAAAAAA
1 AAAATGAAATAAAAAA
414567 TTAAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 3 0.12
15 9 0.35
16 5 0.19
17 9 0.35
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.13
Consensus pattern (16 bp):
AAAATGAAATAAAAAA
Found at i:414548 original size:13 final size:13
Alignment explanation
Indices: 414511--414552 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
414501 AGTAAGGTTA
414511 AAAATGAATAAAATG
1 AAAATGAA-AAAA-G
414526 -AAAT-AAAAAAG
1 AAAATGAAAAAAG
414537 AAAATGAAAAAAG
1 AAAATGAAAAAAG
414550 AAA
1 AAA
414553 TAATAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.04
12 8 0.32
13 12 0.48
14 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (13 bp):
AAAATGAAAAAAG
Found at i:414552 original size:24 final size:26
Alignment explanation
Indices: 414511--414564 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 26
414501 AGTAAGGTTA
414511 AAAATGAATAAAATGAAATAAAAAAG
1 AAAATGAATAAAATGAAATAAAAAAG
* *
414537 AAAATGAA-AAAA-GAAATAATAAAT
1 AAAATGAATAAAATGAAATAAAAAAG
414561 AAAA
1 AAAA
414565 AATTAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 14 0.54
25 4 0.15
26 8 0.31
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (26 bp):
AAAATGAATAAAATGAAATAAAAAAG
Found at i:414553 original size:12 final size:12
Alignment explanation
Indices: 414512--414553 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
414502 GTAAGGTTAA
414512 AAATGAATAAAATG
1 AAATGAA-AAAA-G
414526 AAAT-AAAAAAG
1 AAATGAAAAAAG
414537 AAAATGAAAAAAG
1 -AAATGAAAAAAG
414550 AAAT
1 AAAT
414554 AATAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.04
12 12 0.46
13 9 0.35
14 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (12 bp):
AAATGAAAAAAG
Found at i:416139 original size:106 final size:106
Alignment explanation
Indices: 415936--416684 Score: 1091
Period size: 106 Copynumber: 7.1 Consensus size: 106
415926 CAATGCAAGC
* * * * *
415936 TGCGTTGTTTTGAGGCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* * *
416001 TTTGTTGACAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* * * * * * *
416042 TGTGCTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGATCCGAAATTGGGAAATTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
416107 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
416148 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGGAA---G
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* * *
416210 -TTG-T--CAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* * * * * * *
416247 TGTGCTGTCTCGAGTCCAATATCCTTAGCCGTGAAGTTG-AATTGGATCTGAAATTGGGAAATTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
*
416311 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
416352 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* *
416417 TTTGTTGACAACCAGCAGTCCCTTCTTCGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
416458 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGAGAAGTTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
416523 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
*
416564 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* *
416629 TTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
416670 TGTGTTGTCTTGAGT
1 TGCGTTGTCTGGAGT
416685 GGCACGATAT
Statistics
Matches: 579, Mismatches: 56, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
98 21 0.04
99 63 0.11
101 2 0.00
102 5 0.01
103 2 0.00
105 63 0.11
106 423 0.73
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (106 bp):
TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
Found at i:417002 original size:37 final size:36
Alignment explanation
Indices: 416921--417286 Score: 194
Period size: 37 Copynumber: 10.4 Consensus size: 36
416911 GCAAATTGTG
*
416921 TTGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAACT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGA-CAAACT
* * *
416958 TAG-TTCAAAAAGAAACTGTCTCAAGGGAGACGAACT
1 TTGTTTC-AAGAGAAACTGTCTCAAGGGAGACAAACT
* * * *
416994 TTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACT
** * * * *
417030 TCATTTCAAGGGAAA-TGTTTTCAA---TG-----TT
1 TTGTTTCAAGAGAAACTG-TCTCAAGGGAGACAAACT
*
417058 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAACT
* * * *
417096 TTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACT
** * * * *
417132 TCATTTCAAGGGAAA-TGTTTTC------G--ATATT
1 TTGTTTCAAGAGAAACTG-TCTCAAGGGAGACAAACT
*
417160 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAACT
* * *
417198 TTGTTTCAAGAAAAACTGTCCCAAGAGAGACAAAACT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAACT
* * * *
417235 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACT
* * *
417271 GTGTTTTAAGAAAAAC
1 TTGTTTCAAGAGAAAC
417287 AATCTTGAGT
Statistics
Matches: 249, Mismatches: 54, Indels: 53
0.70 0.15 0.15
Matches are distributed among these distances:
28 6 0.02
29 30 0.12
30 5 0.02
32 1 0.00
33 1 0.00
35 3 0.01
36 84 0.34
37 111 0.45
38 8 0.03
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAACT
Found at i:417137 original size:102 final size:102
Alignment explanation
Indices: 416968--417232 Score: 451
Period size: 102 Copynumber: 2.6 Consensus size: 102
416958 TAGTTCAAAA
* *
416968 AGAAACTGTCTCAAGGGAGAC-GAACTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
1 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
*
417032 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
66 ATTTCAAGGGAAATGTTTTCAATATTTATGTTTCAAG
417069 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
1 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
*
417134 ATTTCAAGGGAAATGTTTTCGATATTTATGTTTCAAG
66 ATTTCAAGGGAAATGTTTTCAATATTTATGTTTCAAG
** * *
417171 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAAAAACTGTCCCAAGAGAGACAAAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
417233 CTTAGTTCCA
Statistics
Matches: 155, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
101 21 0.14
102 134 0.86
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (102 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
ATTTCAAGGGAAATGTTTTCAATATTTATGTTTCAAG
Found at i:417691 original size:32 final size:32
Alignment explanation
Indices: 417655--417727 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
417645 ATCCCCTAAG
*
417655 ATGCCCCAATACTCGATGTTGAAT-TTCAAAAA
1 ATGCCCCAACACTCGATGTTGAATCTTC-AAAA
* * * *
417687 ATGCCCCAGCATTTGATGTTGAATCTTCAAAG
1 ATGCCCCAACACTCGATGTTGAATCTTCAAAA
417719 ATGCCCCAA
1 ATGCCCCAA
417728 ATGTTCCTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 31 0.91
33 3 0.09
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (32 bp):
ATGCCCCAACACTCGATGTTGAATCTTCAAAA
Found at i:418158 original size:22 final size:22
Alignment explanation
Indices: 418133--418176 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
418123 GCATTTTGTT
*
418133 CATTTCATGCTCAATGGTTTGA
1 CATTTCATGCTCAAAGGTTTGA
*
418155 CATTTGATGCTCAAAGGTTTGA
1 CATTTCATGCTCAAAGGTTTGA
418177 TGGGGTAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (22 bp):
CATTTCATGCTCAAAGGTTTGA
Found at i:418848 original size:7 final size:7
Alignment explanation
Indices: 418825--418904 Score: 65
Period size: 7 Copynumber: 10.9 Consensus size: 7
418815 TGTTGATTCA
418825 TTTTTTCC
1 TTTTTT-C
418833 TTTTGTTC
1 TTTT-TTC
418841 TTGTTTCTC
1 TT-TTT-TC
*
418850 TTTTCTC
1 TTTTTTC
418857 TTTTTTC
1 TTTTTTC
418864 TTTTTTC
1 TTTTTTC
*
418871 -TTTGT-
1 TTTTTTC
*
418876 TTTTTGC
1 TTTTTTC
418883 TTTTTTAC
1 TTTTTT-C
418891 TTCTTTTC
1 TT-TTTTC
418899 TTTTTT
1 TTTTTT
418905 GTTCTTGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
6 7 0.12
7 24 0.41
8 16 0.27
9 12 0.20
ACGTcount: A:0.01, C:0.16, G:0.05, T:0.78
Consensus pattern (7 bp):
TTTTTTC
Found at i:418858 original size:16 final size:16
Alignment explanation
Indices: 418839--418877 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
418829 TTCCTTTTGT
418839 TCTTGTTTCTCTTTTC
1 TCTTGTTTCTCTTTTC
* *
418855 TCTTTTTTCTTTTTTC
1 TCTTGTTTCTCTTTTC
418871 T-TTGTTT
1 TCTTGTTT
418878 TTTGCTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (16 bp):
TCTTGTTTCTCTTTTC
Found at i:418864 original size:23 final size:23
Alignment explanation
Indices: 418827--418871 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
418817 TTGATTCATT
418827 TTTTCCTTTTGTTCTTGTTTCTC
1 TTTTCCTTTTGTTCTTGTTTCTC
*
418850 TTTTCTCTTTT-TTCTTTTTTCT
1 TTTTC-CTTTTGTTCTTGTTTCT
418872 TTGTTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTTCCTTTTGTTCTTGTTTCTC
Found at i:418897 original size:19 final size:18
Alignment explanation
Indices: 418838--418910 Score: 55
Period size: 19 Copynumber: 4.1 Consensus size: 18
418828 TTTCCTTTTG
* *
418838 TTCTTGTTTCTCTTTTC-
1 TTCTTTTTTCTTTTTTCT
418855 -TCTTTTTTCTTTTTTCT
1 TTCTTTTTTCTTTTTTCT
*
418872 TTGTTTTTTGCTTTTTTAC-
1 TTCTTTTTT-CTTTTTT-CT
418891 TTCTTTTCTT-TTTTGTTCT
1 TTCTTTT-TTCTTTT-TTCT
418910 T
1 T
418911 GATTGAATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
16 14 0.31
18 12 0.27
19 16 0.36
20 3 0.07
ACGTcount: A:0.01, C:0.16, G:0.05, T:0.77
Consensus pattern (18 bp):
TTCTTTTTTCTTTTTTCT
Found at i:422543 original size:10 final size:10
Alignment explanation
Indices: 422528--422596 Score: 59
Period size: 10 Copynumber: 6.6 Consensus size: 10
422518 AAAATGTTAG
422528 ATAAAAATAA
1 ATAAAAATAA
422538 ATAAAAATAA
1 ATAAAAATAA
*
422548 ATAAATATTAA
1 ATAAA-AATAA
*
422559 ATAAACCAAAAAA
1 AT-AA--AAATAA
422572 ATAAAAAT-A
1 ATAAAAATAA
*
422581 ATAAAACTAA
1 ATAAAAATAA
*
422591 CTAAAA
1 ATAAAA
422597 TAGTAAATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
9 8 0.17
10 24 0.50
11 6 0.12
12 4 0.08
13 5 0.10
14 1 0.02
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:424580 original size:21 final size:20
Alignment explanation
Indices: 424554--424592 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
424544 AAAAAAATAA
*
424554 AAAAATAAAAGAAGTAAAAGT
1 AAAAATAAAA-AAGGAAAAGT
424575 AAAAATAAAAAAGGAAAA
1 AAAAATAAAAAAGGAAAA
424593 AGAATGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (20 bp):
AAAAATAAAAAAGGAAAAGT
Found at i:424891 original size:20 final size:20
Alignment explanation
Indices: 424853--424893 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
424843 TAAACAATGT
* * *
424853 ATAAAAAATAATAGTAATAA
1 ATAAAAAAAAACAGAAATAA
424873 ATAAAAAAAAACAGAAATAA
1 ATAAAAAAAAACAGAAATAA
424893 A
1 A
424894 AGAAATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (20 bp):
ATAAAAAAAAACAGAAATAA
Found at i:424932 original size:2 final size:2
Alignment explanation
Indices: 424925--424955 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
424915 AATCAAAGTA
424925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
424956 AATAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:426356 original size:33 final size:34
Alignment explanation
Indices: 426283--426368 Score: 129
Period size: 37 Copynumber: 2.5 Consensus size: 34
426273 CGATGGTTTG
*
426283 GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGG---TTTTTTT
426320 GTGTTTCAAGAGAAACAATTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
426353 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
426369 CGTATTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
33 22 0.46
37 26 0.54
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:426433 original size:36 final size:36
Alignment explanation
Indices: 426386--426495 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 36
426376 AAAGATTGAA
*
426386 GTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
*
426422 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA--A
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * *
426456 CTTTCAAAAGAAACTGTCTCAAGGGAGACAAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
426492 GTTT
1 GTTT
426496 AACGTAAAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.45
36 35 0.55
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (36 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:426545 original size:30 final size:30
Alignment explanation
Indices: 426509--426567 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
426499 GTAAAACACA
*
426509 TTCAAAGATTT-TGTTTCAA-AGAAAACTGTT
1 TTCAAAG-TTTATGCTTCAAGAG-AAACTGTT
426539 TTCAAAGTTTATGCTTCAAGAGAAACTGT
1 TTCAAAGTTTATGCTTCAAGAGAAACTGT
426568 CTCAAGGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 21 0.81
31 2 0.08
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (30 bp):
TTCAAAGTTTATGCTTCAAGAGAAACTGTT
Found at i:426600 original size:36 final size:36
Alignment explanation
Indices: 426553--426904 Score: 126
Period size: 36 Copynumber: 10.3 Consensus size: 36
426543 AAGTTTATGC
* * *
426553 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
** * **
426589 TTCAAGGGAAACTATCTCATTAGTGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
* * * *
426625 TTCAAGGGAAA-TGTTTTC-A-A-TG-----TTTATGT
1 TTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT-TGT
* *
426654 TTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTGT
* *
426691 TTCAAGGGAACCTATCTCAAGAGAGACAAAATTTAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
** * * * *
426727 CGCAAGGGAAA-TGTTTTC-A-A-TG-----TTTATGT
1 TTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT-TGT
* * *
426756 TTCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTGT
* ** * * * *
426793 TCCAAAAGAAAATGTCTTAAGGGAGACAAAATTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
* *
426829 TTCAAGGGAAACAGAT-TC-A-A-AG----ATTTTGT
1 TTCAAGGGAAAC-TATCTCAAGAGAGACAAAATTTGT
* **
426858 TTCAAGAGAAACTATCTCAAGAGAGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
426894 TTCAAGGGAAA
1 TTCAAGGGAAA
426905 TGTTTTCAAT
Statistics
Matches: 219, Mismatches: 64, Indels: 66
0.63 0.18 0.19
Matches are distributed among these distances:
28 6 0.03
29 46 0.21
30 5 0.02
31 2 0.01
32 3 0.01
33 5 0.02
34 2 0.01
35 4 0.02
36 84 0.38
37 58 0.26
38 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGT
Found at i:426706 original size:37 final size:37
Alignment explanation
Indices: 426651--426724 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
426641 TCAATGTTTA
*
426651 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
* *
426688 TGTTTCAAGGGAACCTATCTCAAGAGAGACAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
426725 ATCGCAAGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:426745 original size:102 final size:101
Alignment explanation
Indices: 426535--426904 Score: 447
Period size: 102 Copynumber: 3.6 Consensus size: 101
426525 CAAAGAAAAC
* * *
426535 TGTTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
1 TGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
** * *
426600 CTATCTCATTAGTGACAAAATTCATTTCAAGGGAAA
66 CTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAA
* *
426636 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
1 TGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAA
* **
426701 CCTATCTCAAGAGAGACAAAATTTATCGCAAGGGAAA
65 ACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAA
* * * * **
426738 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAAACAAAACTTAGTTCCAAAAGAA
1 TGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAA
* * * * *
426803 AATGTCTTAAGGGAGACAAAATTTGTTTCAAGGGAAA
65 ACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAA
* * **
426840 CAG-ATTCAAAGATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGA
1 -TGTTTTCAAAG-TTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGA
426903 AA
64 AA
426905 TGTTTTCAAT
Statistics
Matches: 232, Mismatches: 34, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
101 57 0.25
102 171 0.74
103 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (101 bp):
TGTTTTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
CTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAA
Found at i:427108 original size:36 final size:36
Alignment explanation
Indices: 426996--427115 Score: 109
Period size: 36 Copynumber: 3.3 Consensus size: 36
426986 GTGAAAATGG
*
426996 TCTCAAGTGAGACAAAGTCTGTTTTAAGAAAAGCAA
1 TCTCAAGTGAGACAAAGTCTGTTTTAAGAAAAACAA
* ** * * * * * *
427032 ACTTGAGTGAAATAAA-TCT-TCTTTCGAGTAAAATAC
1 TCTCAAGTGAGACAAAGTCTGT-TTT-AAGAAAAACAA
*
427068 TCTCAAGTGAGACAAAGTATGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAAGTCTGTTTTAAGAAAAACAA
427104 TCTCAAGTGAGA
1 TCTCAAGTGAGA
427116 TAATCATTTG
Statistics
Matches: 60, Mismatches: 20, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
34 1 0.02
35 6 0.10
36 47 0.78
37 5 0.08
38 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (36 bp):
TCTCAAGTGAGACAAAGTCTGTTTTAAGAAAAACAA
Found at i:427113 original size:72 final size:74
Alignment explanation
Indices: 426943--427106 Score: 226
Period size: 72 Copynumber: 2.2 Consensus size: 74
426933 ACAAAATTTC
* **
426943 TTTAA-AAAAACAGTCTTGAGTGAAATGAAATGTCTTCTTTCAAGTGAAAATGGTCTCAAGTGAG
1 TTTAAGAAAAACAATCTTGAGTGAAAT-AAA-GTCTTCTTTCAAGTGAAAATACTCTCAAGTGAG
*
427007 ACAAAGTCTGT
64 ACAAAGTATGT
* * *
427018 TTTAAGAAAAGCAAACTTGAGTGAAATAAA-TCTTCTTTCGAGT-AAAATACTCTCAAGTGAGAC
1 TTTAAGAAAAACAATCTTGAGTGAAATAAAGTCTTCTTTCAAGTGAAAATACTCTCAAGTGAGAC
427081 AAAGTATGT
66 AAAGTATGT
427090 TTTAAGAAAAACAATCT
1 TTTAAGAAAAACAATCT
427107 CAAGTGAGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
72 41 0.52
73 12 0.15
75 8 0.10
76 18 0.23
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (74 bp):
TTTAAGAAAAACAATCTTGAGTGAAATAAAGTCTTCTTTCAAGTGAAAATACTCTCAAGTGAGAC
AAAGTATGT
Found at i:433849 original size:29 final size:27
Alignment explanation
Indices: 433817--433876 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
433807 ACAAAATGAG
* *
433817 ATAAAAATAAGAAAATAAAAGAAGTAAAA
1 ATAAAAATAA-AAAAGAAAA-AAGAAAAA
*
433846 ATAAAAATAAACAAGAAAAAAGAAAAA
1 ATAAAAATAAAAAAGAAAAAAGAAAAA
433873 ATAA
1 ATAA
433877 TGAAGTAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 11 0.39
28 7 0.25
29 10 0.36
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (27 bp):
ATAAAAATAAAAAAGAAAAAAGAAAAA
Found at i:433865 original size:20 final size:21
Alignment explanation
Indices: 433820--433872 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
433810 AAATGAGATA
*
433820 AAAATAAG-AAAATAAAAGAAG
1 AAAA-AAGAAAAATAAAACAAG
* *
433841 TAAAAATAAAAAT-AAACAAG
1 AAAAAAGAAAAATAAAACAAG
433861 AAAAAAGAAAAA
1 AAAAAAGAAAAA
433873 ATAATGAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAAAGAAAAATAAAACAAG
Found at i:434166 original size:23 final size:21
Alignment explanation
Indices: 434140--434187 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
434130 AAATAATAGT
*
434140 AATAATAAGTATTAAACTAAAAA
1 AATAAT-AGTAATAAA-TAAAAA
*
434163 AATAATATTAATAAATAAAAA
1 AATAATAGTAATAAATAAAAA
434184 AATA
1 AATA
434188 GAAATAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 7 0.30
23 6 0.26
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AATAATAGTAATAAATAAAAA
Found at i:438904 original size:15 final size:16
Alignment explanation
Indices: 438877--438913 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
438867 CTTTATTATC
438877 TTATTTCATCTTTCGT
1 TTATTTCATCTTTCGT
*
438893 TTATTT-ATCTTTTGT
1 TTATTTCATCTTTCGT
438908 TTATTT
1 TTATTT
438914 TATTCTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (16 bp):
TTATTTCATCTTTCGT
Found at i:439283 original size:10 final size:10
Alignment explanation
Indices: 439268--439293 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
439258 TTTTTTTTTC
439268 AAAAAAACAA
1 AAAAAAACAA
439278 AAAAAAACAA
1 AAAAAAACAA
439288 AAAAAA
1 AAAAAA
439294 GGCAAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:449045 original size:86 final size:86
Alignment explanation
Indices: 448884--449247 Score: 543
Period size: 86 Copynumber: 4.2 Consensus size: 86
448874 CCCATGTGGA
* * *
448884 TTTCCCATGAAGGGGAGTCATCCAAAGATCGTCTC-ACTGGTTCAGACCTGCAAAGGGGAACCAC
1 TTTCCCGTGAAGGGGAGTCATCCAAAGATCGTCTCAACTGGTTCAGACCCGCGAAGGGGAACCAC
*
448948 CTGAAAAATATATCACTTGGC
66 CTGAAGAATATATCACTTGGC
*
448969 TTTCCCGTGAAGGGGAGTCATCCAAAGATCGTCTCAACTGGTTCAGACCCGCGAAGGGGAATCAC
1 TTTCCCGTGAAGGGGAGTCATCCAAAGATCGTCTCAACTGGTTCAGACCCGCGAAGGGGAACCAC
449034 CTGAAGAATATATCACTT-GC
66 CTGAAGAATATATCACTTGGC
* * * *
449054 TTTTCCTGTGAAGGGGAGTCTTCCAAAGATCGTCTCACCTGGTTCAGACCCACGAAGGGGAACCA
1 -TTTCCCGTGAAGGGGAGTCATCCAAAGATCGTCTCAACTGGTTCAGACCCGCGAAGGGGAACCA
* *
449119 CCTGAAGAATATACCATTTGGC
65 CCTGAAGAATATATCACTTGGC
* * * ***
449141 TTTCCCTTGAAGGGGAGTCATCCAAATATCGTCTCACCTGGTTCAGACCCGCGAAGGGGAACGGT
1 TTTCCCGTGAAGGGGAGTCATCCAAAGATCGTCTCAACTGGTTCAGACCCGCGAAGGGGAACCAC
449206 CTGAAGAATATATCACTTGGC
66 CTGAAGAATATATCACTTGGC
*
449227 TTTCCCGTGAAGGTGAGTCAT
1 TTTCCCGTGAAGGGGAGTCAT
449248 TTAAAGAATT
Statistics
Matches: 252, Mismatches: 24, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
85 36 0.14
86 214 0.85
87 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (86 bp):
TTTCCCGTGAAGGGGAGTCATCCAAAGATCGTCTCAACTGGTTCAGACCCGCGAAGGGGAACCAC
CTGAAGAATATATCACTTGGC
Found at i:449451 original size:85 final size:85
Alignment explanation
Indices: 449303--449853 Score: 752
Period size: 85 Copynumber: 6.5 Consensus size: 85
449293 TCACTTAACT
* * * * *
449303 ATTTGCAGCATAGTTCAAGGCGAGAAGGGCTATCTGCCAACAAAGGCCTTCGAGTTCGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
*
449368 TCAACTCAAAGGTATATCAA
66 TCAACTCAAAGGCATATCAA
*
449388 ATTTACAGCATAACTCAAGGCGAGAAGGGCTT-TCTGTCAACAAAGACCTTCGAGTTCGATTACA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGG-TTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
*
449452 TTCAACTCAAAGGCATATAAA
65 TTCAACTCAAAGGCATATCAA
* * *
449473 ATTTACAGCAGAGTTCAAGGCGAGAAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
*
449538 TCAGCTCAAAGGCATATCAA
66 TCAACTCAAAGGCATATCAA
* * *
449558 ATTTATAGCATAGCTCAAGGCGATAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
*
449623 TCAGCTC-AAGGACATATCAA
66 TCAACTCAAAGG-CATATCAA
* *
449643 ATTTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGAACTTCGAGTTCGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
449708 TCAACTC-AAGG-AT-TCAA
66 TCAACTCAAAGGCATATCAA
* * ** * * *
449725 ATTTACAGCATAACTAAAGGATAGAAGGGTTATCTGTCAACAAATACCTTCGAGCTCGATTCCAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
* *
449790 TCAACTCAAGGGCATTTCAA
66 TCAACTCAAAGGCATATCAA
* * * ** *
449810 ATTTACAGCATATCTTAAGTCGAGAAAAGCTATCTGTCAACAAA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAA
449854 AAAACTATCG
Statistics
Matches: 416, Mismatches: 44, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
82 67 0.16
83 5 0.01
84 8 0.02
85 335 0.81
86 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (85 bp):
ATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
TCAACTCAAAGGCATATCAA
Found at i:450758 original size:36 final size:36
Alignment explanation
Indices: 450708--451069 Score: 407
Period size: 36 Copynumber: 9.9 Consensus size: 36
450698 TATATATATA
450708 TATATATATAATATAGTTTTTAAAACATTTTGAAAACT
1 TATATA-AT-ATATAGTTTTTAAAACATTTTGAAAACT
* * *
450746 TATGTAATATATATTTTTTAAAACA-TTTGAAAAAAT
1 TATATAATATATAGTTTTTAAAACATTTTG-AAAACT
450782 ATATATAATATATAGTTTTTAAAACATTTTGAAAACT
1 -TATATAATATATAGTTTTTAAAACATTTTGAAAACT
*
450819 TATATAATATATGGTTTTTTAAAAACATTTTGAAAACT
1 TATATAATATATAG-TTTTT-AAAACATTTTGAAAACT
450857 TATAT-A-ATATAGTTTTTTAAAACATTTTGAAAACT
1 TATATAATATATAG-TTTTTAAAACATTTTGAAAACT
*
450892 TATATAATATATAATTTTTCAAAAACATTTTGAAAACT
1 TATATAATATATAGTTTTT--AAAACATTTTGAAAACT
450930 TATATAATATATAGTTTTTTAAAAACATTTTGAAAA--
1 TATATAATATATAG-TTTTT-AAAACATTTTGAAAACT
* **
450966 TATATAAATTATATAATTTAAAAAACATTTTGAAAAC-
1 TATAT-AA-TATATAGTTTTTAAAACATTTTGAAAACT
* * * *
451003 TATGTAATATATAGTTTTGAAAAC-TTTTTAAAATTT
1 TATATAATATATAGTTTTTAAAACATTTTGAAAA-CT
* *
451039 TATATAATATAGAG-TTTTAAAATCTTTTTGA
1 TATATAATATATAGTTTTTAAAA-CATTTTGA
451070 TTATTATTAT
Statistics
Matches: 284, Mismatches: 23, Indels: 35
0.83 0.07 0.10
Matches are distributed among these distances:
34 8 0.03
35 47 0.17
36 86 0.30
37 55 0.19
38 83 0.29
39 5 0.02
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAACT
Found at i:450787 original size:73 final size:74
Alignment explanation
Indices: 450707--451049 Score: 381
Period size: 73 Copynumber: 4.7 Consensus size: 74
450697 ATATATATAT
* *
450707 ATATATATATAATATAGTTTTTAAAACATTTTGAAAACTTATGTAATATAT-ATTTTTTAAAACA
1 ATATATATATAATATAGTTTTTAAAACATTTTGAAAACTTATATAATATATAATTTTTAAAAACA
450771 -TTTGAAAA
66 TTTTGAAAA
**
450779 A-ATATATATAATATATAGTTTTTAAAACATTTTGAAAACTTATATAATATATGGTTTTTTAAAA
1 ATATATATAT-A-ATATAGTTTTTAAAACATTTTGAAAACTTATATAATATAT-AATTTTTAAAA
450843 ACATTTTG-AAA
63 ACATTTTGAAAA
*
450854 A-CT-TATATAATATAGTTTTTTAAAACATTTTGAAAACTTATATAATATATAATTTTTCAAAAA
1 ATATATATATAATATAG-TTTTTAAAACATTTTGAAAACTTATATAATATATAATTTTT-AAAAA
450917 CATTTTGAAAA
64 CATTTTGAAAA
* *
450928 CT-TATATA-ATATATAGTTTTTTAAAAACATTTTGAAAA--TATATAAATTATATAA-TTTAAA
1 ATATATATATA-ATATAG-TTTTT-AAAACATTTTGAAAACTTATAT-AA-TATATAATTTTTAA
450988 AAACATTTTGAAAA
61 AAACATTTTGAAAA
* * * * *
451002 CTATGTA-AT-ATATAGTTTTGAAAAC-TTTTTAAAATTTTATATAATATA
1 ATATATATATAATATAGTTTTTAAAACATTTTGAAAA-CTTATATAATATA
451050 GAGTTTTAAA
Statistics
Matches: 241, Mismatches: 11, Indels: 39
0.83 0.04 0.13
Matches are distributed among these distances:
70 8 0.03
71 17 0.07
72 19 0.08
73 97 0.40
74 34 0.14
75 40 0.17
76 26 0.11
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (74 bp):
ATATATATATAATATAGTTTTTAAAACATTTTGAAAACTTATATAATATATAATTTTTAAAAACA
TTTTGAAAA
Found at i:450850 original size:111 final size:108
Alignment explanation
Indices: 450712--451049 Score: 413
Period size: 111 Copynumber: 3.1 Consensus size: 108
450702 TATATATATA
450712 TATATAATATA-G-TTTTT-AAAACATTTTGAAAACTTATGTAATATATATTTTTTAAAACA-TT
1 TATATAATATATGTTTTTTAAAAACATTTTGAAAACTTAT-TAATATATATTTTTTAAAACATTT
450773 TGAAAAAATATATATAATATATAGTTTTTAAAACATTTTGAAAACT
65 TG-AAAAAT-TATATAATATATAGTTTTTAAAACATTTTGAAAACT
*
450819 TATATAATATATGGTTTTTTAAAAACATTTTGAAAACTTATATAATATA-GTTTTTTAAAACATT
1 TATATAATATAT-GTTTTTTAAAAACATTTTGAAAACTTAT-TAATATATATTTTTTAAAACATT
* *
450883 TTGAAAACTTATATAATATATAATTTTTCAAAAACATTTTGAAAACT
64 TTGAAAAATTATATAATATATAGTTTTT--AAAACATTTTGAAAACT
* * **
450930 TATATAATATATAGTTTTTTAAAAACATTTTGAAAA-TATATAAATTATATAATTTAAAAAACAT
1 TATATAATATAT-GTTTTTTAAAAACATTTTGAAAACT-TATTAA-TATATATTTTTTAAAACAT
* * * * *
450994 TTTG-AAAACTATGTAATATATAGTTTTGAAAAC-TTTTTAAAATTT
63 TTTGAAAAATTATATAATATATAGTTTTTAAAACATTTTGAAAA-CT
451039 TATATAATATA
1 TATATAATATA
451050 GAGTTTTAAA
Statistics
Matches: 203, Mismatches: 17, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
107 11 0.05
108 8 0.04
109 36 0.18
110 25 0.12
111 109 0.54
112 14 0.07
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (108 bp):
TATATAATATATGTTTTTTAAAAACATTTTGAAAACTTATTAATATATATTTTTTAAAACATTTT
GAAAAATTATATAATATATAGTTTTTAAAACATTTTGAAAACT
Found at i:451077 original size:3 final size:3
Alignment explanation
Indices: 451069--451127 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
451059 AATCTTTTTG
* *
451069 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT -GT ATT -TT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
451113 -TT ATT -TT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT
451128 TTTGTCCAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
2 9 0.19
3 35 0.74
4 3 0.06
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.71
Consensus pattern (3 bp):
ATT
Found at i:451112 original size:4 final size:5
Alignment explanation
Indices: 451070--451129 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
451060 ATCTTTTTGA
* *
451070 TTATT ATTATT ATTATT ATTATT ATTGTT GTATT TTA-T TTATT TTATT
1 TTATT -TTATT -TTATT -TTATT -TTATT TTATT TTATT TTATT TTATT
451118 TTATT TTATT TT
1 TTATT TTATT TT
451130 TGTCCAGGGT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
4 4 0.08
5 23 0.47
6 22 0.45
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:453994 original size:3 final size:3
Alignment explanation
Indices: 453964--454037 Score: 105
Period size: 3 Copynumber: 24.0 Consensus size: 3
453954 TTGGGTTTTG
*
453964 TAA TAT TAA TAA -ATA TATA TATA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
454011 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
454038 ATTTTAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 1 0.01
3 57 0.85
4 9 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:454692 original size:114 final size:114
Alignment explanation
Indices: 454396--455071 Score: 1019
Period size: 114 Copynumber: 6.0 Consensus size: 114
454386 AGAATTATGC
** *
454396 AAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
454457 TATGAACTTTCTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGC-
66 TATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCA
*
454505 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
454570 TATGAACTTTTTCTGGAAAAGCTAATCCATCAGATGATGGATTTGAGCA
66 TATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCA
454619 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
454684 TATGAACTTTTTCTGGAAAAACTAATCCATCAAATGATGGATTTGAGCA
66 TATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCA
454733 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
454798 TATGAACTTTTTCT-GAAAAGCTAATCCATCAGATGATGGATTTGAGC-
66 TATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCA
454845 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * ** * * * * *
454910 TATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTT-A-AA
63 CATTATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCA
* * *
454960 AAAAAGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAAGTTCTTCT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG---AGTTCTTCT
* *
455025 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTT
63 CATTATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGGATTT
455072 TAATCTTTGC
Statistics
Matches: 521, Mismatches: 33, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
109 28 0.05
112 59 0.11
113 100 0.19
114 190 0.36
115 120 0.23
116 24 0.05
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (114 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTTTCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCA
Found at i:454732 original size:227 final size:226
Alignment explanation
Indices: 454394--455071 Score: 1026
Period size: 227 Copynumber: 3.0 Consensus size: 226
454384 ATAGAATTAT
** *
454394 GCAAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
454455 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 ATTATGAACTTTATCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
*
454520 TTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
131 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
454585 GAAAAGCTAATCCATCAGATGATGGATTTGA
196 GAAAAGCTAATCCATCAGATGATGGATTTGA
454616 GCAAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GC-AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
454681 CATTATGAACTTTTTCTGGAAAAACTAATCCATCAAATGATGGATTTGAGCAAAAAGGTTGAACA
65 CATTATGAACTTTATCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGC-AAAAGGTTGAACA
454746 AATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTC
129 AATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTC
454811 T-GAAAAGCTAATCCATCAGATGATGGATTTGA
194 TGGAAAAGCTAATCCATCAGATGATGGATTTGA
454843 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * * * * * * ** * *
454908 CTTATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTT-AAAAAAAAGTTGAAT
63 CTCATTATGAACTTTATCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAAC
*
454972 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAAGTTCTTCTCATTATGAACTT
128 AAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG---AGTTCTTCTCATTATGAACTT
* * *
455037 TCTCTGGAAAAGCTGATCCATCAAATGATGGATTT
190 TTTCTGGAAAAGCTAATCCATCAGATGATGGATTT
455072 TAATCTTTGC
Statistics
Matches: 418, Mismatches: 25, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
222 2 0.00
223 28 0.07
226 58 0.14
227 151 0.36
228 79 0.19
229 48 0.11
230 25 0.06
231 27 0.06
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (226 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTATCTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
GAAAAGCTAATCCATCAGATGATGGATTTGA
Found at i:455941 original size:83 final size:88
Alignment explanation
Indices: 455792--456025 Score: 309
Period size: 83 Copynumber: 2.7 Consensus size: 88
455782 GTTCTGGGTT
* * * * *
455792 TTATATCAAACCAAATTAGAGAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCT
1 TTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCT
455857 TCCAAATTC-AA-T-GAT-TGAT-
66 TCCAAATTCAAACTGGATCTG-TG
* *
455876 TT-TACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTAGCACATTCATCT
1 TTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCT
*
455940 TCCAAATTCAATAACTGGTTCTGTGG
66 TCCAAATTC-A-AACTGGATCTGT-G
455966 TTGATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 TT-ATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
456026 GGCATTTGTT
Statistics
Matches: 130, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
83 64 0.49
84 2 0.02
86 2 0.02
87 1 0.01
88 3 0.02
89 2 0.02
90 2 0.02
92 54 0.42
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (88 bp):
TTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCT
TCCAAATTCAAACTGGATCTGTG
Done.