Locus 2833

Sequence ID 3R_DroMel_CAF1
Location 7,605,067 – 7,605,227
Length 160
Max. P 0.951222
window4580 window4581

overview

Window 0

Location 7,605,067 – 7,605,187
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 84.12
Mean single sequence MFE -21.40
Consensus MFE -20.62
Energy contribution -20.40
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.36
Structure conservation index 0.96
SVM decision value 1.41
SVM RNA-class probability 0.951222
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7605067 120 + 27905053
ACAGCAGAAAGGGCCAUUAAGAUUGCAUUUAUGUAUUUUAAUGGUAGGGAAUAAAUUUAUUUGCAUAACAAAAUUCUGGAUCUUGAUCACUUUGGAUGCCCUAAACUACUAAAACUACUA
....(((((...(((((((((((.(((....)))))))))))))).(.(((((....))))).).........)))))(((....)))..(((((.....)))))............... ( -21.10)
>DroSec_CAF1 487 100 + 1
ACAGCAGAAAAGGCCAUUAAGAUUGCAUUUAUGUAUUUUAAUGGUAGGGAAUAAAUUUAUUUGCAUAACAAAAUUCA---------CGACUUUGGAUGCCCUUAACUAU-----------
...(((..(((((((((((((((.(((....)))))))))))))).(.(((((....))))).).............---------...))))...)))..........----------- ( -20.50)
>DroSim_CAF1 487 100 + 1
ACAGCAGAAAAGGCCAUUAAGAUUGCAUUUAUGUAUUUUAAUGGUAGGGAAUAAAUUUAUUUGCAUAACAAAAUUCA---------CGACUUUGGAUGCCCUAAGCUAU-----------
..(((.......(((((((((((.(((....))))))))))))))((((..........((((.....))))(((((---------......))))).))))..)))..----------- ( -22.60)
>consensus
ACAGCAGAAAAGGCCAUUAAGAUUGCAUUUAUGUAUUUUAAUGGUAGGGAAUAAAUUUAUUUGCAUAACAAAAUUCA_________CGACUUUGGAUGCCCUAAACUAU___________
...(((..(((((((((((((((.(((....)))))))))))))).(.(((((....))))).).........................))))...)))..................... (-20.62 = -20.40 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 7,605,107 – 7,605,227
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 82.35
Mean single sequence MFE -19.73
Consensus MFE -18.27
Energy contribution -17.39
Covariance contribution -0.88
Combinations/Pair 1.13
Mean z-score -0.29
Structure conservation index 0.93
SVM decision value 0.00
SVM RNA-class probability 0.534181
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7605107 120 + 27905053
AUGGUAGGGAAUAAAUUUAUUUGCAUAACAAAAUUCUGGAUCUUGAUCACUUUGGAUGCCCUAAACUACUAAAACUACUAUUGUAGUUCUUUGGAGGGUAAAAGGAUAACCUGCUUUUAA
..((((((...........((((.....))))(((((.(((....)))........((((((...(((....((((((....))))))...)))))))))..)))))..))))))..... ( -24.40)
>DroSec_CAF1 527 100 + 1
AUGGUAGGGAAUAAAUUUAUUUGCAUAACAAAAUUCA---------CGACUUUGGAUGCCCUUAACUAU-----------UUGUAGUUCUUUGGAGGGUAAAAGGAUAUCCUAUUUUUAA
..(((((((..........((((.....)))).....---------...((((...((((((((((((.-----------...))))).....))))))).))))...)))))))..... ( -18.10)
>DroSim_CAF1 527 100 + 1
AUGGUAGGGAAUAAAUUUAUUUGCAUAACAAAAUUCA---------CGACUUUGGAUGCCCUAAGCUAU-----------UUGUAGUUCUUUGGAGGGUAAAAGGAUAACCUAUUUUCAA
..((((((((((....((((....))))....)))).---------...((((...((((((.(((((.-----------...)))))......)))))).))))....))))))..... ( -16.70)
>consensus
AUGGUAGGGAAUAAAUUUAUUUGCAUAACAAAAUUCA_________CGACUUUGGAUGCCCUAAACUAU___________UUGUAGUUCUUUGGAGGGUAAAAGGAUAACCUAUUUUUAA
..((((((((((....((((....))))....)))).............((((...((((((.((((((.............))))))......)))))).))))....))))))..... (-18.27 = -17.39 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:48 2006