Locus 3125

Sequence ID 3R_DroMel_CAF1
Location 8,233,923 – 8,234,013
Length 90
Max. P 0.721576
window5065

overview

Window 5

Location 8,233,923 – 8,234,013
Length 90
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 70.25
Mean single sequence MFE -18.34
Consensus MFE -9.70
Energy contribution -9.42
Covariance contribution -0.28
Combinations/Pair 1.41
Mean z-score -1.67
Structure conservation index 0.53
SVM decision value 0.40
SVM RNA-class probability 0.721576
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8233923 90 - 27905053
UGCCUGCAAAUACUUGGAAAC--C----CAAGAACCAGUUGGAGCACUAUUUUUAAAAGAAGUGGAACCGAACUGGUUAUAGUAAUAAACACAUAU
....(((.....(((((....--)----))))((((((((.(.(..(((((((.....)))))))..)).))))))))...)))............ ( -23.00)
>DroSec_CAF1 1454 87 - 1
UGCCUGUAAAUAACUGGAAAA--C----CAAGAACUAGUUGGAGCACUAUUUUCAAAACGAGUGGAACCGAACUGGUUGC---AAGUAAUAAAUAU
(((.(((.......(((....--)----))..((((((((.(.(..((((((.......))))))..)).))))))))))---).)))........ ( -16.30)
>DroSim_CAF1 1454 84 - 1
UGCCC--AAAUAACUGGAAAA--C----CAAGAACUAGUUGGAGCA-UAUUUUCAAAAGGGGUGGAACCGAACUGGUUGC---AAGAAAUAAAUAU
.((((--...(((((((....--.----......)))))))(((..-....))).....))))(.((((.....)))).)---............. ( -15.10)
>DroEre_CAF1 1459 82 - 1
UGC-UG----------CGAAAACCUCAGCUGGAACCAGCUGAAGCACUAAUUUUAAAUAGAGUGGAACUGAAUUCGUUAC---UAGUAAUAAUAGU
(((-((----------((((....(((((((....)))))))..((((............))))........)))))...---.))))........ ( -19.20)
>DroYak_CAF1 1475 91 - 1
UGC-UGCAAGUA-CUGCAAAAAUCCCAGAGGGAACUAGAUGAAGCACUAAUUUUAAAUAGAGUGGAACUGAUCUGGUUUC---UAGUAAUAAAAAU
(((-((((....-.)))............(((((((((((..((..(((.(((.....))).)))..)).))))))))))---)))))........ ( -18.10)
>consensus
UGCCUG_AAAUA_CUGGAAAA__C____CAAGAACUAGUUGGAGCACUAUUUUUAAAAAGAGUGGAACCGAACUGGUUAC___AAGUAAUAAAUAU
................................((((((((.(.(..(((((((.....)))))))..)).)))))))).................. ( -9.70 =  -9.42 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:39 2006