Locus 1975

Sequence ID 2L_DroMel_CAF1
Location 5,356,682 – 5,356,842
Length 160
Max. P 0.998714
window3191 window3192 window3193

overview

Window 1

Location 5,356,682 – 5,356,802
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -47.35
Consensus MFE -42.60
Energy contribution -42.79
Covariance contribution 0.19
Combinations/Pair 1.06
Mean z-score -2.70
Structure conservation index 0.90
SVM decision value 3.20
SVM RNA-class probability 0.998714
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5356682 120 + 22407834
UGGCCGACAAGUUCAAGGCGAGCAUCUUCGAGCGCACCAAGGAUGGCAGCACGCUGAUGCACAUUGCGUCACUCAACGGUCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUCU
((((......((((((((......)))).))))((((..((.(((((.......((((((.....)))))).......))))).))..)))))))).(((((((((....))))))))). ( -46.04)
>DroVir_CAF1 36646 120 + 1
UGGCGGACAAAUUCAAGGCGAGCAUCUUCGAGCGCACCAAGGAUGGCAGCACACUGAUGCACAUUGCAUCACUUAAUGGCCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGUGUCU
....(((((..(((..((.(((((((...(.((((((..((.(((((.......((((((.....)))))).......))))).))..)))))))..))))))).))..)))...))))) ( -50.64)
>DroGri_CAF1 30626 120 + 1
UGGCGGACAAGUUCAAAGCGAGCAUCUUCGAGCGCACCAAGGAUGGCAGCACUUUGAUGCACAUUGCAUCCCUGAAUGGCCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUCU
((((......((((.(((.......))).))))((((..((.(((((........(((((.....)))))........))))).))..)))))))).(((((((((....))))))))). ( -47.49)
>DroWil_CAF1 34047 120 + 1
UGGCGGACAAAUUCAAGGCGAGCAUCUUUGAGCGCACCAAGGAUGGCAGCACACUGAUGCACAUUGCAUCACUCAAUGGUCAUGCUGAGUGCGCCACUAUGCUCUUCAAGAAGGGUGUCU
....(((((..(((..((.((((((...((.((((((..((.(((((.......((((((.....)))))).......))))).))..))))))))..)))))).))..)))...))))) ( -46.24)
>DroMoj_CAF1 32444 120 + 1
UGGCGGACAAAUUCAAGGCGAGCAUCUUCGAGCGCACCAAGGAUGGCAGCACACUGAUGCACAUCGCAUCACUCAAUGGCCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUCU
.((((..(...(((..((.(((((((...(.((((((..((.(((((.......((((((.....)))))).......))))).))..)))))))..))))))).))..))).).)))). ( -48.84)
>DroAna_CAF1 20379 120 + 1
UGGCCGACAAGUUCAAGGCGAGCAUCUUCGAGCGCACCAAGGAUGGCAGCACUCUGAUGCACAUUGCGUCACUCAACGGUCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUGU
..(((((.....))..((.(((((((...(.((((((..((.(((((.......((((((.....)))))).......))))).))..)))))))..))))))).))......))).... ( -44.84)
>consensus
UGGCGGACAAAUUCAAGGCGAGCAUCUUCGAGCGCACCAAGGAUGGCAGCACACUGAUGCACAUUGCAUCACUCAAUGGCCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUCU
.....(((...(((..((.(((((((...(.((((((..((.(((((.......((((((.....)))))).......))))).))..)))))))..))))))).))..)))....))). (-42.60 = -42.79 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 5,356,682 – 5,356,802
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.17
Mean single sequence MFE -47.07
Consensus MFE -39.04
Energy contribution -39.35
Covariance contribution 0.31
Combinations/Pair 1.08
Mean z-score -2.52
Structure conservation index 0.83
SVM decision value 1.11
SVM RNA-class probability 0.916023
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5356682 120 - 22407834
AGACGCCCUUCUUGAAGAGCAUCGUGGCGCACUCAGCAUGACCGUUGAGUGACGCAAUGUGCAUCAGCGUGCUGCCAUCCUUGGUGCGCUCGAAGAUGCUCGCCUUGAACUUGUCGGCCA
.((((...(((..(..(((((((...(((((((((((......)))))))).)))...(((((((((.(((....))).).)))))))).....)))))))..)..)))..))))..... ( -46.60)
>DroVir_CAF1 36646 120 - 1
AGACACCCUUCUUGAAGAGCAUCGUGGCGCACUCAGCAUGGCCAUUAAGUGAUGCAAUGUGCAUCAGUGUGCUGCCAUCCUUGGUGCGCUCGAAGAUGCUCGCCUUGAAUUUGUCCGCCA
.((((...(((..(..(((((((..((((((((.((.(((((.....(.((((((.....)))))).).....))))).)).))))))))....)))))))..)..)))..))))..... ( -50.40)
>DroGri_CAF1 30626 120 - 1
AGACGCCCUUCUUGAAGAGCAUCGUGGCGCACUCAGCAUGGCCAUUCAGGGAUGCAAUGUGCAUCAAAGUGCUGCCAUCCUUGGUGCGCUCGAAGAUGCUCGCUUUGAACUUGUCCGCCA
.((((...(((.....(((((((..((((((((.((.(((((((((....(((((.....)))))..))))..))))).)).))))))))....))))))).....)))..))))..... ( -47.60)
>DroWil_CAF1 34047 120 - 1
AGACACCCUUCUUGAAGAGCAUAGUGGCGCACUCAGCAUGACCAUUGAGUGAUGCAAUGUGCAUCAGUGUGCUGCCAUCCUUGGUGCGCUCAAAGAUGCUCGCCUUGAAUUUGUCCGCCA
.((((...(((..(..((((((..(((((((((((((((........(.((((((.....)))))).)))))))........))))))).))...))))))..)..)))..))))..... ( -41.70)
>DroMoj_CAF1 32444 120 - 1
AGACGCCCUUCUUGAAGAGCAUCGUGGCGCACUCAGCAUGGCCAUUGAGUGAUGCGAUGUGCAUCAGUGUGCUGCCAUCCUUGGUGCGCUCGAAGAUGCUCGCCUUGAAUUUGUCCGCCA
.((((...(((..(..(((((((..((((((((.((.((((((((..(.((((((.....)))))).))))..))))).)).))))))))....)))))))..)..)))..))))..... ( -48.00)
>DroAna_CAF1 20379 120 - 1
ACACGCCCUUCUUGAAGAGCAUCGUGGCGCACUCAGCAUGACCGUUGAGUGACGCAAUGUGCAUCAGAGUGCUGCCAUCCUUGGUGCGCUCGAAGAUGCUCGCCUUGAACUUGUCGGCCA
....(((.(((..(..(((((((...(((((((((((......)))))))).)))...........((((((.((((....))))))))))...)))))))..)..)))......))).. ( -48.10)
>consensus
AGACGCCCUUCUUGAAGAGCAUCGUGGCGCACUCAGCAUGACCAUUGAGUGAUGCAAUGUGCAUCAGUGUGCUGCCAUCCUUGGUGCGCUCGAAGAUGCUCGCCUUGAACUUGUCCGCCA
.((((...(((..(..(((((((..((((((((((((((.((......))(((((.....)))))...))))))........))))))))....)))))))..)..)))..))))..... (-39.04 = -39.35 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 5,356,722 – 5,356,842
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 90.89
Mean single sequence MFE -44.38
Consensus MFE -34.92
Energy contribution -34.92
Covariance contribution 0.00
Combinations/Pair 1.16
Mean z-score -2.43
Structure conservation index 0.79
SVM decision value 0.06
SVM RNA-class probability 0.566063
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5356722 120 + 22407834
GGAUGGCAGCACGCUGAUGCACAUUGCGUCACUCAACGGUCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUCUACCUCCAUAUGCCCAACAAGGAUGGAGCCCGGAGUAUUCA
(.(((((.......((((((.....)))))).......))))).).((((((.((..(((((((((....)))))))))...((((((...((......))))))))...)).)))))). ( -43.44)
>DroVir_CAF1 36686 120 + 1
GGAUGGCAGCACACUGAUGCACAUUGCAUCACUUAAUGGCCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGUGUCUAUCUUCACAUGCCCAACAAGGAUGGCGCCCGCAGCAUACA
..(((((.......((((((.....)))))).......)))))((((.(.((((((.(((((((((....))))))))).............((.....)).)))))).).))))..... ( -44.84)
>DroGri_CAF1 30666 120 + 1
GGAUGGCAGCACUUUGAUGCACAUUGCAUCCCUGAAUGGCCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUCUACCUCCACAUGCCCAACAAGGAUGGGGCACGCAGCAUACA
..(((((........(((((.....)))))........)))))((((.((((.(((.(((((((((....)))))))))....(((.............)))))).)))).))))..... ( -46.61)
>DroWil_CAF1 34087 120 + 1
GGAUGGCAGCACACUGAUGCACAUUGCAUCACUCAAUGGUCAUGCUGAGUGCGCCACUAUGCUCUUCAAGAAGGGUGUCUAUCUGCAUAUGCCCAAUAAGGAUGGAGCACGUAGCAUACA
..(((((.......((((((.....)))))).......)))))((((.((((........((((((....)))))).(((((((...(((.....))).))))))))))).))))..... ( -36.64)
>DroMoj_CAF1 32484 120 + 1
GGAUGGCAGCACACUGAUGCACAUCGCAUCACUCAAUGGCCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUCUAUCUGCACAUGCCCAACAAGGAUGGCGCCCGCAGCAUACA
..(((((.......((((((.....)))))).......)))))((((.(.((((((.(((((((((....))))))))).............((.....)).)))))).).))))..... ( -47.14)
>DroAna_CAF1 20419 120 + 1
GGAUGGCAGCACUCUGAUGCACAUUGCGUCACUCAACGGUCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUGUACCUCCACAUGCCCAACAAGGACGGAGCCCGAAGUAUCCA
(((((((.((((((((((((.....))))))......((.....))))))))))).((..(((((((..(..((((((((......))))))))..)...)).))))).))....)))). ( -47.60)
>consensus
GGAUGGCAGCACACUGAUGCACAUUGCAUCACUCAAUGGCCAUGCUGAGUGCGCCACGAUGCUCUUCAAGAAGGGCGUCUACCUCCACAUGCCCAACAAGGAUGGAGCCCGCAGCAUACA
..(((((.......((((((.....)))))).......)))))((((.(.((.(((.(((((((((....))))))))).............((.....)).))).)).).))))..... (-34.92 = -34.92 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:21 2006