Locus 3373

Sequence ID X_DroMel_CAF1
Location 8,993,854 – 8,993,959
Length 105
Max. P 0.632712
window5525

overview

Window 5

Location 8,993,854 – 8,993,959
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.51
Mean single sequence MFE -36.32
Consensus MFE -16.70
Energy contribution -17.12
Covariance contribution 0.42
Combinations/Pair 1.14
Mean z-score -1.91
Structure conservation index 0.46
SVM decision value 0.20
SVM RNA-class probability 0.632712
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8993854 105 - 22224390
CGGAGAACGCCUCCGAGCUGCAGGGCACGGAUGUGGCUUACAGCGUAGGUGACAUUCGGCU-------------AUUACAUCAUUCCAU--UGACCUGCUAAUCCUCGCGGGGUUUCCGC
(((((...(((((((((..(((((((.(((((((.((((((...)))))).))))))))).-------------......(((......--)))))))).....)))).)))))))))). ( -44.40)
>DroSec_CAF1 5640 102 - 1
CGGAGAACGCCUCCGAGCUGCAGGGCACGGAUGUGGCUUACAGCGUAGGUGACAUCCGCCU-------------GUUACAUCAUUCCAU--UGACC---UAAUCCUCGAGUUCUUUCCGC
.((((.....))))((((((((((...(((((((.((((((...)))))).))))))))))-------------))....(((......--)))..---.........)))))....... ( -34.80)
>DroSim_CAF1 7335 102 - 1
CGGAGAACGCCUCCGAGCUGCAGGGCACGGAUGUGGCUUACAGCGUAGGUGACAUCCGCCU-------------AUUACAUCAUUCCAU--UGACC---UAAUCCUCGAGCUCUUUCCGC
.((((.....))))(((((..(((...(((((((.((((((...)))))).)))))))...-------------((((..(((......--)))..---)))))))..)))))....... ( -35.60)
>DroEre_CAF1 5781 101 - 1
CGGAGAACGCCGCGGAGCUGCAGGGCUCGGAUGUGGCUUACAGUGUAGGUGUCAU-CGCCU-------------AUUACAUCAUUCAAU--UGAUC---UAAUCUUCGCGGGGUUUCCUC
.(((((.(.((((((((.....((((...((((..((((((...))))))..)))-)))))-------------((((.((((......--)))).---)))))))))))).)))))).. ( -37.40)
>DroYak_CAF1 7393 101 - 1
CGGAGAACGCCGCGGAGCUGCAGGGCACGGAUGUGGCGUACAGCGUAGGUGACAU-CGCCU-------------AUUACAUCAUUCAAU--UGAUC---UAAUCAUUGCGGCGUUUCCUC
.(((((.((((((((.((((.(.(.(((....))).).).))))(((((((....-)))))-------------))((.((((......--)))).---))....))))))))))))).. ( -41.00)
>DroPer_CAF1 7989 107 - 1
CCGAGAACGCCACAGACCUCAUUGGCACCGACGUGGCUUAUGGCGCAAGUGUCUU-CAGAUUUUCCACCCAAUGGUUACAUCACGCUAUAUGGUGU---UUAUU---------UUUUCUU
....((((((((.((.((.(.(((....))).).))))(((((((...((((..(-((..............)))..))))..)))))))))))))---))...---------....... ( -24.74)
>consensus
CGGAGAACGCCUCCGAGCUGCAGGGCACGGAUGUGGCUUACAGCGUAGGUGACAU_CGCCU_____________AUUACAUCAUUCCAU__UGACC___UAAUCCUCGCGGGGUUUCCGC
.(((((..(((............)))...((((((((.....))..(((((.....)))))...............))))))...............................))))).. (-16.70 = -17.12 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:47 2006