Locus 7666

Sequence ID X_DroMel_CAF1
Location 19,094,597 – 19,094,700
Length 103
Max. P 0.999941
window12582 window12583

overview

Window 2

Location 19,094,597 – 19,094,700
Length 103
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 70.36
Mean single sequence MFE -26.00
Consensus MFE -13.64
Energy contribution -15.67
Covariance contribution 2.03
Combinations/Pair 1.04
Mean z-score -2.13
Structure conservation index 0.52
SVM decision value 1.45
SVM RNA-class probability 0.955013
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19094597 103 + 22224390
UUGU-----UGCUAGUUGCCAUCAAUGUCAACA-----AAAAAAAGAACCCUUUGCUACCAAUUAUUGGCCAAGUCCAAUAAACAGAAGGCUGCUGGAGGGGUAGGUGGGGUU
((((-----((...((((....))))..)))))-----).......((((((...(((((..(((((((......))))))).(((.......)))....)))))..)))))) ( -28.00)
>DroSim_CAF1 4372 111 + 1
NNNN--NNNNNNNNNNNNNNNNNNNNNNCAACAAAAAAAAAAAAGGAACCCUAUGCAACCAAUUAUUGGCAAAGUCCAAUAAACAGAAGGCUGCUGGAGGGGUAGUUCGGGGU
....--.........................................(((((..((.(((..(((((((......))))))).(((.......)))....))).))..))))) ( -19.50)
>DroYak_CAF1 4651 107 + 1
UU--GCUGCUGCUAGUUGACAUCAAUGUCAACACA---AAAAA-AAAACCCUAUGCAACCAAUUAUUGACCAAGUCCAAUAAACAGAAGGCUGCGGAAGGGGCAGGUGGGGGU
..--(((.(..((.(((((((....)))))))...---.....-....((((.((((.((..((((((........))))))......)).))))..))))...))..).))) ( -30.50)
>consensus
UU_______UGCUAGUUG_CAUCAAUGUCAACA_A___AAAAAAAGAACCCUAUGCAACCAAUUAUUGGCCAAGUCCAAUAAACAGAAGGCUGCUGGAGGGGUAGGUGGGGGU
..............(((((((....)))))))................((((.(((..((..((((((........)))))).(((....))).....)).)))...)))).. (-13.64 = -15.67 +   2.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,094,597 – 19,094,700
Length 103
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 70.36
Mean single sequence MFE -25.03
Consensus MFE -18.69
Energy contribution -18.80
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -2.21
Structure conservation index 0.75
SVM decision value 4.71
SVM RNA-class probability 0.999941
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19094597 103 - 22224390
AACCCCACCUACCCCUCCAGCAGCCUUCUGUUUAUUGGACUUGGCCAAUAAUUGGUAGCAAAGGGUUCUUUUUUU-----UGUUGACAUUGAUGGCAACUAGCA-----ACAA
(((((...(((((......((((....))))(((((((......)))))))..)))))....))))).......(-----(((((...(((....)))....))-----)))) ( -23.30)
>DroSim_CAF1 4372 111 - 1
ACCCCGAACUACCCCUCCAGCAGCCUUCUGUUUAUUGGACUUUGCCAAUAAUUGGUUGCAUAGGGUUCCUUUUUUUUUUUUGUUGNNNNNNNNNNNNNNNNNNNNNN--NNNN
............((((...((((((......(((((((......)))))))..))))))..))))..........................................--.... ( -20.40)
>DroYak_CAF1 4651 107 - 1
ACCCCCACCUGCCCCUUCCGCAGCCUUCUGUUUAUUGGACUUGGUCAAUAAUUGGUUGCAUAGGGUUUU-UUUUU---UGUGUUGACAUUGAUGUCAACUAGCAGCAGC--AA
........((((((((...((((((......(((((((......)))))))..))))))..))))....-.....---((((((((((....)))))))..))))))).--.. ( -31.40)
>consensus
ACCCCCACCUACCCCUCCAGCAGCCUUCUGUUUAUUGGACUUGGCCAAUAAUUGGUUGCAUAGGGUUCUUUUUUU___U_UGUUGACAUUGAUG_CAACUAGCA_______AA
............((((...((((((......(((((((......)))))))..))))))..))))................................................ (-18.69 = -18.80 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:40 2006