Locus 2301

Sequence ID 3L_DroMel_CAF1
Location 6,467,533 – 6,467,639
Length 106
Max. P 0.541235
window3553

overview

Window 3

Location 6,467,533 – 6,467,639
Length 106
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 78.34
Mean single sequence MFE -30.57
Consensus MFE -18.85
Energy contribution -18.63
Covariance contribution -0.22
Combinations/Pair 1.32
Mean z-score -1.39
Structure conservation index 0.62
SVM decision value 0.02
SVM RNA-class probability 0.541235
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6467533 106 - 23771897
UAAAUGGAAAAUCAA-AGCCUCAACUUUAUCGUUUCUAGGUAAAACACCAUCGAUGGCAGGAAGCCUGCCAACUGGCACUUGAUGGCUACAUUGCCUCUGUGGAUCG
((..((((((...((-((......))))....))))))..)).....((((.((.(((((..((((((((....))))......))))...))))))).)))).... ( -28.90)
>DroVir_CAF1 2276 102 - 1
UAUAUGAAAAAUUCU-AAU-CC---UUCUGUGUUUGUAGGUAAAGAAUCAUCGCUGGCAGGAGGCCUGUCAACUGGCCUUGGAUGGCUAUAUAGCCUCGGCAGAUCG
.....((...(((((-...-((---(.(.......).)))...)))))..)).(((.(..((((((........)))))).((.((((....))))))).))).... ( -26.80)
>DroSec_CAF1 2270 106 - 1
UAAAUGGAAAAUCAU-AGCCUCAACUUUAUUGUUUCCAGGUGAAACACCAUCGGUGGCAGGAAGCCUGCCAACUGGCACUCGAUGGCUACAUUGCCUCGGUGGAUCG
....((((((.....-((......))......))))))((((...)))).(((((((((((...)))))).)))))(((.(((.(((......)))))))))..... ( -35.10)
>DroEre_CAF1 2266 106 - 1
CAAAUGGGAAAUCGU-AACCUUACCUUUAUCGUUUCCAGGUAAAACAUCAUCGGUGGCAGGAAGCCUGCCAACUGGCACUAGAUGGCUACAUUGCCUCUGUGGAUCG
......((((((.((-((........)))).)))))).(((.........(((((((((((...)))))).)))))(((.(((.(((......))))))))).))). ( -32.40)
>DroYak_CAF1 2272 107 - 1
CAUAUGGAAAAUCAUCAACAUCACCUUUAUCCUUUCUAGGUAAAACACCAUCGGUGGCAGGAAGCCUGUCAACUGGCACUAGAUGGCUACAUUGCCUCUGUGGAUCG
....((((((......................))))))(((.....))).(((((((((((...)))))).)))))(((.(((.(((......)))))))))..... ( -24.95)
>DroMoj_CAF1 2290 104 - 1
AAUAUAGAGUUUACU-AAU-UCAA-UUCUCCAUUUUCAGGUGAAGAACCAUCGCUGGCAGGAGGCCUGUCAGCUCGCCUUGGAUGGCUACGUCGCCUCUGCGGAGCG
......(((((....-)))-))..-..((((......((((((.((....))(((((((((...))))))))))))))).(((.(((......))))))..)))).. ( -35.30)
>consensus
UAAAUGGAAAAUCAU_AACCUCAACUUUAUCGUUUCCAGGUAAAACACCAUCGGUGGCAGGAAGCCUGCCAACUGGCACUAGAUGGCUACAUUGCCUCUGUGGAUCG
......................................(((.....)))..((((((((((...))))))......(((.(((.(((......))))))))).)))) (-18.85 = -18.63 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:00 2006