Locus 1108

Sequence ID 3R_DroMel_CAF1
Location 3,354,133 – 3,354,244
Length 111
Max. P 0.724263
window1813

overview

Window 3

Location 3,354,133 – 3,354,244
Length 111
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 77.96
Mean single sequence MFE -40.30
Consensus MFE -27.97
Energy contribution -26.92
Covariance contribution -1.05
Combinations/Pair 1.37
Mean z-score -1.28
Structure conservation index 0.69
SVM decision value 0.41
SVM RNA-class probability 0.724263
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3354133 111 + 27905053
AAUCGGUCUCUCCUGCCGAGCAUCGAGCUCUGAA---UUCCAUGGGUCUGCCAAUUGGGAGGCCACAAAUCGGGCUUUCCCUAGCGGCGGCUUGGCAAAGGGAAUUCCCUCGAA
..(((........((((((((...((.((.((..---...)).)).))((((....((((((((........))).)))))....)))))))))))).((((....))))))). ( -42.40)
>DroPse_CAF1 36447 114 + 1
UAUGUCCCUUUCCUGUUGGGCAUCUAGCUCCUGACCCUCCCAUGGAUCUGCGGGCUCUGGGGCCACAAAACGGAGAUCAGCCAGCGGUGGUUUGCCAAAGGGAAUGCCCUCAAA
....(((((((....((((((.(((((..((((....(((...)))....))))..)))))))).)))...((((((((.(....).)))))).)))))))))........... ( -34.30)
>DroSec_CAF1 47559 111 + 1
AAUCGGCCUCUCCUGCCGAGCAUCCAACUCUGAA---UUCCAUGGGUCUGCCAAUUGGGAGGCCCUAAAUCGGGCUUUCCCCAGCGGCGGCUUGGCAAAGGGAAUUCCCUCGAA
..(((........((((((((.....((((((..---...)).)))).((((....(((((((((......))))))))).....)))))))))))).((((....))))))). ( -44.20)
>DroSim_CAF1 41832 111 + 1
AAUCGAUCUCUCCUGCCGAGCAUCGAGUUCUGAA---UUCCAUGGGUCUGCCAAUUGGGAGGCCCCAAAUCGGGCUUUCCCCAGCGGCGGCUUGGCAAAGGGAAUUCCCUCAAA
......(((((..((((((((...((.(..((..---...))..).))((((....(((((((((......))))))))).....)))))))))))).)))))........... ( -41.10)
>DroEre_CAF1 40868 111 + 1
AAUAGGUCCCUCCUGCCGAGCAUCGAGCUCUGAA---UUCCACGGAUCUGCCGAAUGGGAGGCCCUAAACCGGGUUUUCCCCAGCGGCGGCUGGGCAUAGGGAAUCCCCUCGAA
...((((((((..((((((((.....))))....---.....(((..((((((...(((((((((......)))))))))....))))))))))))).)))))....))).... ( -45.50)
>DroPer_CAF1 36228 114 + 1
UAUGUCCCUUUCCUGUUGGGCAUCUAGCUCCUGACCCUCCCAUGGAUCUGCGGGCUCUGGGGCCACAAAACGGAGAUCAGCCAGCGGUGGUUUGCCAAAGGGAAUGCCCUCAAA
....(((((((....((((((.(((((..((((....(((...)))....))))..)))))))).)))...((((((((.(....).)))))).)))))))))........... ( -34.30)
>consensus
AAUCGGCCUCUCCUGCCGAGCAUCGAGCUCUGAA___UUCCAUGGAUCUGCCAAUUGGGAGGCCACAAAUCGGGCUUUCCCCAGCGGCGGCUUGGCAAAGGGAAUUCCCUCAAA
.............((((((((.......(((............))).((((.....((((((((........))))))))...))))..)))))))).((((....)))).... (-27.97 = -26.92 +  -1.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:05 2006