Locus 3620

Sequence ID 3L_DroMel_CAF1
Location 10,653,606 – 10,653,716
Length 110
Max. P 0.543623
window5645

overview

Window 5

Location 10,653,606 – 10,653,716
Length 110
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 91.31
Mean single sequence MFE -24.32
Consensus MFE -17.20
Energy contribution -17.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.71
SVM decision value 0.02
SVM RNA-class probability 0.543623
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10653606 110 + 23771897
AAAGUAGAAACAGCUUUUCUUACAGACG---GAGGCGAACAAAGCAUUAAAUGAUGCUUUGGCAUC--GAC-UACCUUGCUUCUUCUUCG-UCGCUCAAUUU--UUUCUUCUCAUUUCA
...(((((((.....)))).))).((((---((((.((((((((((((....)))))))))(((..--...-.....)))))).))))))-)).........--............... ( -27.40)
>DroSec_CAF1 15860 114 + 1
AAAGUAGAAACAGCUUUUCUUACAGACGACAGAGGCGAACAAAGCAUUAAAUGAUGCUUUGGCAUC--GACUUACCUUGCUUCUUCUUCG-CCGCUCAAUUU--UUUCUUCUCAUUUCA
...(((((((.....)))).))).......((.(((((((((((((((....)))))))))(((..--.........)))......))))-)).))......--............... ( -24.30)
>DroSim_CAF1 15271 114 + 1
AAAGUAGAAACAGCUUUUCUUACAGACGACAGAGGCGAACAAAGCAUUAAAUGAUGCUUUGGCAUC--GACUUACCUUGCUUCUUCUUCG-CCGCUCAAUUU--UUUCUUCUCAUUUCA
...(((((((.....)))).))).......((.(((((((((((((((....)))))))))(((..--.........)))......))))-)).))......--............... ( -24.30)
>DroEre_CAF1 16390 115 + 1
AAAGUAAAAACUGCUUUUCUUACUGAUG---GAGGCGAACAAAGCAUUAAAUGAUGCUUUGGCAUCGCGAC-UACCUUGCUUCUUCUUCUGCUGCUCAAUUUUUUUUCUUCUCAUUUCA
((((((.....))))))......(((.(---(((((((.(((((((((....)))))))))...))))...-......((..(.......)..))............)))))))..... ( -23.40)
>DroYak_CAF1 16266 106 + 1
A-----AAAACAGCUUUUCUUACAGAUG---GAGGCGAACAAAGCAUUAAAUGAUGCUUUGGCAUC--GAC-UACCUUGCUUCUUCUUCU-CCGCUCAAUUUU-UUUCUUCUCAUUUCA
.-----..................((((---((((.((((((((((((....)))))))))(((..--...-.....)))...))).)))-))).))......-............... ( -22.20)
>consensus
AAAGUAGAAACAGCUUUUCUUACAGACG___GAGGCGAACAAAGCAUUAAAUGAUGCUUUGGCAUC__GAC_UACCUUGCUUCUUCUUCG_CCGCUCAAUUU__UUUCUUCUCAUUUCA
...............................((((.((((((((((((....)))))))))(((.............))).........................))).))))...... (-17.20 = -17.20 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:27 2006