Locus 6085

Sequence ID 3R_DroMel_CAF1
Location 15,964,682 – 15,964,798
Length 116
Max. P 0.978826
window9924

overview

Window 4

Location 15,964,682 – 15,964,798
Length 116
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 76.56
Mean single sequence MFE -23.80
Consensus MFE -15.82
Energy contribution -17.98
Covariance contribution 2.16
Combinations/Pair 1.13
Mean z-score -2.17
Structure conservation index 0.66
SVM decision value 1.82
SVM RNA-class probability 0.978826
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15964682 116 + 27905053
UUUAUUUUGCAAUU-UCUGUUUAAGGAUUUCUAUUUCCGCAGGGUCCUC--GGCCAGACAGGCUAGCAUCUCCCGCAACUCAAAAAAAAAGAAAAAAAAAAACGGAACAGAAAAUUGUA
.......(((((((-(((((((..(((........)))((.(((..((.--((((.....)))))).....)))))............................)))))).)))))))) ( -27.00)
>DroSec_CAF1 91021 109 + 1
UUUAUUUUGCAAUU-UCUGUUUAAGGAUUUCUAUUUCCGCAGGGUCCUCCUAGCCAGACAGGCUAGCAUCUCUCGCACC--A-------AAAAAAAAAAAAACGGAACAGAAAAUUGUA
.......(((((((-(((((((..(((........)))((((((.....((((((.....))))))...)))).))...--.-------...............)))))).)))))))) ( -30.30)
>DroSim_CAF1 66874 99 + 1
UUUAUUUUGCAAUU-UCUGUUUAAGGAUUUCUAUUUCCGCAGGGUCCUC--GGCCAGACAGGCUAGCAUCUCCCGCA-----------------AAAAAAAAAGGAACAGAAAAUUGUA
.......(((((((-(((((((..(((........)))((.(((..((.--((((.....)))))).....))))).-----------------..........)))))).)))))))) ( -27.00)
>DroYak_CAF1 95297 90 + 1
UUUAUUUUGCAAUU-UCUGUUUAAGGAUUUCUAUUUCCGCAGGGUCCUG--GGCCAGACAGGCUAGCAUCUCCCU--------------------A------AAAAAAUAAAAAUAGUU
((((((((......-.........(((........)))..((((.....--((((.....)))).......))))--------------------.------..))))))))....... ( -17.50)
>DroAna_CAF1 59920 89 + 1
UUUAUUUUGCAAUUUUCUGUUUAAGGAUUUCUAUUUCCGCCGGGCUCUU--GGCCAGACAUGCUCGCU-----CU-------------------AAAAAAAACGGAU-AAAAAA---UA
..((((((.......(((((((..(((........)))((.((((...(--(......)).)))))).-----..-------------------.....))))))).-..))))---)) ( -17.20)
>consensus
UUUAUUUUGCAAUU_UCUGUUUAAGGAUUUCUAUUUCCGCAGGGUCCUC__GGCCAGACAGGCUAGCAUCUCCCGCA_________________AAAAAAAACGGAACAGAAAAUUGUA
........((((((.(((((((..(((........)))...(((.......((((.....)))).......)))..............................))))))).)))))). (-15.82 = -17.98 +   2.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:17 2006