Locus 1110

Sequence ID X_DroMel_CAF1
Location 3,263,254 – 3,263,374
Length 120
Max. P 0.986421
window1791 window1792

overview

Window 1

Location 3,263,254 – 3,263,374
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.94
Mean single sequence MFE -27.95
Consensus MFE -22.21
Energy contribution -22.77
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -2.08
Structure conservation index 0.79
SVM decision value 2.04
SVM RNA-class probability 0.986421
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3263254 120 + 22224390
CCCCCUCUGAACCACUAAGCCACCGCUCACCGCUCACCGCUCUCACCGCUCCAAAAUGGAGCCCGAAACUCUUCAUCACCGGAGGGGAUGGCUUCUUGGAAACCCCCCACAACAAGAAGA
.((((((((........(((....((.....)).....)))......(((((.....))))).................))))))))....(((((((..............))))))). ( -33.64)
>DroEre_CAF1 41454 100 + 1
AAGCCUCUAAACCAUU--------------------CCGCUCCCGCUGCUCCAAAAUGAAGCCCGAAACUCUUCAUCACCGGAGGGGAUGGCUUCUUGGAAACCCCCCACAACAAGCAGA
................--------------------.........(((((.......((((((.....((((((......))))))...)))))).(((.......))).....))))). ( -23.20)
>DroYak_CAF1 40338 99 + 1
GAGCCUCUAAGCCAUA--------------------CCGAUCCCGCCGCUCCAAAAUGGAGCCAAAAACUCUUCAUCACCGGAGGGGCUGGCUUCUUGGAAACCCCCC-CAACAAGAAGA
.(((((((...((...--------------------.((....))..(((((.....)))))..................)))))))))..(((((((..........-...))))))). ( -27.02)
>consensus
AAGCCUCUAAACCAUU____________________CCGCUCCCGCCGCUCCAAAAUGGAGCCCGAAACUCUUCAUCACCGGAGGGGAUGGCUUCUUGGAAACCCCCCACAACAAGAAGA
....................................(((..(((.(((((((.....)))))..(((....)))......)).)))..)))(((((((..............))))))). (-22.21 = -22.77 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,263,254 – 3,263,374
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.94
Mean single sequence MFE -39.00
Consensus MFE -28.45
Energy contribution -28.90
Covariance contribution 0.45
Combinations/Pair 1.10
Mean z-score -1.31
Structure conservation index 0.73
SVM decision value 0.01
SVM RNA-class probability 0.539669
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3263254 120 - 22224390
UCUUCUUGUUGUGGGGGGUUUCCAAGAAGCCAUCCCCUCCGGUGAUGAAGAGUUUCGGGCUCCAUUUUGGAGCGGUGAGAGCGGUGAGCGGUGAGCGGUGGCUUAGUGGUUCAGAGGGGG
((((((..(((.((((((((((...))))))..))))..)))..).))))).((((..(((((.....))))).((....))..(((((.((((((....))))).).)))))))))... ( -42.60)
>DroEre_CAF1 41454 100 - 1
UCUGCUUGUUGUGGGGGGUUUCCAAGAAGCCAUCCCCUCCGGUGAUGAAGAGUUUCGGGCUUCAUUUUGGAGCAGCGGGAGCGG--------------------AAUGGUUUAGAGGCUU
((((((((((((((((((((((...))))))..))))(((((.(((((((.........)))))))))))))))))..))))))--------------------)............... ( -35.10)
>DroYak_CAF1 40338 99 - 1
UCUUCUUGUUG-GGGGGGUUUCCAAGAAGCCAGCCCCUCCGGUGAUGAAGAGUUUUUGGCUCCAUUUUGGAGCGGCGGGAUCGG--------------------UAUGGCUUAGAGGCUC
((((((..(((-((((((((..(.....)..)))))))))))..).)))))((((((((((((.....)))))(((.(......--------------------..).)))))))))).. ( -39.30)
>consensus
UCUUCUUGUUGUGGGGGGUUUCCAAGAAGCCAUCCCCUCCGGUGAUGAAGAGUUUCGGGCUCCAUUUUGGAGCGGCGGGAGCGG____________________AAUGGUUUAGAGGCUC
((((((..(((.((((((((((...)))))...))))).)))..).)))))(((((..(((((.....))))).((....))...............................))))).. (-28.45 = -28.90 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:42 2006