Locus 4809

Sequence ID X_DroMel_CAF1
Location 12,497,678 – 12,497,768
Length 90
Max. P 0.998968
window7864 window7865

overview

Window 4

Location 12,497,678 – 12,497,768
Length 90
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 90.48
Mean single sequence MFE -15.95
Consensus MFE -13.89
Energy contribution -13.95
Covariance contribution 0.06
Combinations/Pair 1.07
Mean z-score -2.81
Structure conservation index 0.87
SVM decision value 2.21
SVM RNA-class probability 0.990290
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12497678 90 + 22224390
GCA-AAGAGCGAGUGUAGCGACCACCACCGCUACCUACCUAAACAAAAAAGGCAACUCUUCAAUUUUCAAUCCUCACCCUUCUCCAUUAUA
...-..(((.((((((((((........))))))...(((.........)))..))))))).............................. ( -14.30)
>DroSec_CAF1 27169 91 + 1
GCAAAAGAGCGAGUGUAGCGACCACCACCGCUACCUACCUAAACAAAAAAGGCAACUCUUCAAUCUUCAAUCCUCACCCUCCUCCAUUAUA
......(((.(((.((((((........))))))...............((....)).....................))))))....... ( -15.20)
>DroEre_CAF1 28229 91 + 1
GUAAAAGAGCGAGUGUAGCGACCACCACCGCUACCUACCUAAACAAAAAAGGCAACUCUUCAAUCUUGAAUCCUCACUCUCCUCCUUUUUU
.....((((.(((.((((((........))))))...............((....))...............))).))))........... ( -17.10)
>DroYak_CAF1 22570 86 + 1
GUAAAAGAGCGAGUGUAGCGACCACCAUCGCUACCUACCUAAACAGAAAAGGCAAC-----AAUCUUCAAUCCUCACCCUCCUCCUUUUUU
..(((((((.(((.(((((((......)))))))................(....)-----....................)))))))))) ( -17.20)
>consensus
GCAAAAGAGCGAGUGUAGCGACCACCACCGCUACCUACCUAAACAAAAAAGGCAACUCUUCAAUCUUCAAUCCUCACCCUCCUCCAUUAUA
......(((.(((.((((((........))))))...............((....)).....................))))))....... (-13.89 = -13.95 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 12,497,678 – 12,497,768
Length 90
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 90.48
Mean single sequence MFE -29.12
Consensus MFE -28.74
Energy contribution -28.43
Covariance contribution -0.31
Combinations/Pair 1.12
Mean z-score -3.08
Structure conservation index 0.99
SVM decision value 3.30
SVM RNA-class probability 0.998968
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12497678 90 - 22224390
UAUAAUGGAGAAGGGUGAGGAUUGAAAAUUGAAGAGUUGCCUUUUUUGUUUAGGUAGGUAGCGGUGGUGGUCGCUACACUCGCUCUU-UGC
.........((((((((((.................((((((.........))))))(((((((......))))))).)))))))))-).. ( -28.00)
>DroSec_CAF1 27169 91 - 1
UAUAAUGGAGGAGGGUGAGGAUUGAAGAUUGAAGAGUUGCCUUUUUUGUUUAGGUAGGUAGCGGUGGUGGUCGCUACACUCGCUCUUUUGC
......(.(((((((((((..(((((.(..((((......))))..).)))))....(((((((......))))))).))))))))))).) ( -28.70)
>DroEre_CAF1 28229 91 - 1
AAAAAAGGAGGAGAGUGAGGAUUCAAGAUUGAAGAGUUGCCUUUUUUGUUUAGGUAGGUAGCGGUGGUGGUCGCUACACUCGCUCUUUUAC
........(((((((((((..((((....))))...((((((.........))))))(((((((......))))))).))))))))))).. ( -29.50)
>DroYak_CAF1 22570 86 - 1
AAAAAAGGAGGAGGGUGAGGAUUGAAGAUU-----GUUGCCUUUUCUGUUUAGGUAGGUAGCGAUGGUGGUCGCUACACUCGCUCUUUUAC
........(((((((((((...........-----.((((((.........))))))((((((((....)))))))).))))))))))).. ( -30.30)
>consensus
AAAAAAGGAGGAGGGUGAGGAUUGAAGAUUGAAGAGUUGCCUUUUUUGUUUAGGUAGGUAGCGGUGGUGGUCGCUACACUCGCUCUUUUAC
........(((((((((((.................((((((.........))))))(((((((......))))))).))))))))))).. (-28.74 = -28.43 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:37 2006