Locus 5971

Sequence ID 3L_DroMel_CAF1
Location 15,982,128 – 15,982,244
Length 116
Max. P 0.513060
window9537

overview

Window 7

Location 15,982,128 – 15,982,244
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.97
Mean single sequence MFE -35.28
Consensus MFE -31.08
Energy contribution -31.28
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.22
Structure conservation index 0.88
SVM decision value -0.04
SVM RNA-class probability 0.513060
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15982128 116 + 23771897
GCACAAGAAAACUCAAUCAAGGGCCUCGUAAAUCUUGGCACAAUUUGAUGAGUGCACAGUGGGAGACAAUGGGCAUGGGCCGU----GACCCGCGCACAGUGGGCUUGGUAGCAUUUUAU
((.((((...(((((.(((((.(((...........)))....)))))))))).(((....(....)....(((....)))))----).(((((.....)))))))))...))....... ( -34.50)
>DroSec_CAF1 11352 116 + 1
GCACAAGAAAACUCAAUCAAGGGCCUCGUAAAUCUUGGCACAAUUUGAUGAGUGCACAGUGGGAGACAAUGGGCAUGGGCCGU----GACCCGUGCACAGUGGGCUUGCUACCAUUUUAU
(((.......(((((.(((((.(((...........)))....))))))))))((.((.(((....).....(((((((....----..))))))).)).)).)).)))........... ( -35.00)
>DroSim_CAF1 12092 116 + 1
GCACAAGAAAACUCAAUCAAGGGCCUCGUAAAUCUUGGCACAAUUUGAUGAGUGCACAGUGGGAGACAAUGGGCAUGGGCCGU----GACCCGUGCACAGUGGGCUUGCUACCAUUUUAU
(((.......(((((.(((((.(((...........)))....))))))))))((.((.(((....).....(((((((....----..))))))).)).)).)).)))........... ( -35.00)
>DroEre_CAF1 12047 110 + 1
GCGCAAGAAAACUCAAUCAAGGGCCUCGUAAAUCUUGGCACAAUUUGAUGAGUGCACAGUGGGAGACAAUG-GCAUGGGCCGUGAGUGACCCGUGCACAGUGGGCCG---------CAAA
(((.......(((((.(((((.(((...........)))....))))))))))((.((.(((....)....-(((((((((....).).))))))).)).)).))))---------)... ( -38.90)
>DroYak_CAF1 11591 106 + 1
GCACAAGAAAACUCAAUCAAGGGCCUCGUAAAUCUUGGCACAAUUUGAUGAGUGCACAGUGGGAGACAAUG-GCAUGGGCCGU----GACCCGUGCACAGUGGGCCA---------UAAA
.(((......(((((.(((((.(((...........)))....)))))))))).....)))((...((.((-(((((((....----..))))))).)).))..)).---------.... ( -33.00)
>consensus
GCACAAGAAAACUCAAUCAAGGGCCUCGUAAAUCUUGGCACAAUUUGAUGAGUGCACAGUGGGAGACAAUGGGCAUGGGCCGU____GACCCGUGCACAGUGGGCUUG_UA_CAUUUUAU
..........(((((.(((((.(((...........)))....))))))))))((.((.(((....).....(((((((.(......).))))))).)).)).))............... (-31.08 = -31.28 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:29 2006