Locus 9342

Sequence ID 3R_DroMel_CAF1
Location 24,825,013 – 24,825,117
Length 104
Max. P 0.788500
window14951

overview

Window 1

Location 24,825,013 – 24,825,117
Length 104
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 58.47
Mean single sequence MFE -20.97
Consensus MFE -7.93
Energy contribution -7.60
Covariance contribution -0.33
Combinations/Pair 1.43
Mean z-score -1.66
Structure conservation index 0.38
SVM decision value 0.58
SVM RNA-class probability 0.788500
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24825013 104 + 27905053
------GUAUCCUACUUGUUUGCAAGCAUU---AAAAUUCAAAAAAGCUC--AUUAAU-----GAAUGACUUUACACCUUCGGCGCGCACUGUCUGCGUGUAAAAUGCUCGGCAAGCAAA
------.........((((((((.((((((---..........((((.((--(((...-----.))))))))).........(((((((.....)))))))..))))))..)))))))). ( -29.80)
>DroPse_CAF1 37178 111 + 1
GCUU-UAUACUCCAUUAU--UUUAAGCUUUUCACAAACUCAAUUAAAUACUCAUUA-C-----GCAGCGCUUUAUAUUUGCGGGUCGCACUGUUUGCCAUUUACUGGCUGCGAAAACAAA
((((-.(((......)))--...)))).............................-(-----(((((((.........))((((.(((.....))).))))....))))))........ ( -17.10)
>DroSec_CAF1 40899 101 + 1
------GUAUCCCACUUGUUUGCAAGCAUU---AAAAUUCAAAAAAACUC--CUG--------UAAUGACUUUACACCUUCGGCGCGCACUGUCUGCGUGUAAAAUGCUCGACAAGCAAA
------.........((((((((.((((((---.................--.((--------(((.....)))))......(((((((.....)))))))..)))))).).))))))). ( -25.10)
>DroSim_CAF1 43135 82 + 1
------CUAUCCUACUUGCUUGCA----------------------ACUC--CCA--------UAAUGACUUUACACCUUCGGCGCGCACUGUCUGCGUGUAAAAUGCUCGACAAGCAAA
------.........((((((((.----------------------....--...--------...((......))......(((((((.....))))))).........).))))))). ( -16.50)
>DroEre_CAF1 35820 89 + 1
--AU-AAUAUCCCACUUGUUUGAGAACAUA---AAAGUUCAAUGAAACAC--AGCUAU-----------------------GACGCGCACUGUCUGCGUGAAAAAUGCGCGGAAAACAAA
--..-..........((((((..((((...---...))))..........--......-----------------------..((((((...((.....))....))))))..)))))). ( -18.10)
>DroYak_CAF1 36775 107 + 1
--ACGAAUACUCAACACGUUUG------UU---UAAUUUCAAUUAAAUAC--AAUUAUGUUUGCAACCGCUUUACAACAUCGACGCGCACUGUCUGCGUGUAAAAUGCGCGGAAAACAAA
--..................((------((---((((....)))))))).--.....(((((....((((.......(((..(((((((.....)))))))...))).)))).))))).. ( -19.20)
>consensus
______AUAUCCCACUUGUUUGCAAGCAUU___AAAAUUCAAUAAAACAC__AUU__U_____GAAUGACUUUACACCUUCGGCGCGCACUGUCUGCGUGUAAAAUGCUCGGAAAACAAA
..................................................................................(((((((.....)))))))................... ( -7.93 =  -7.60 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:32:13 2006