Locus 2500

Sequence ID 3L_DroMel_CAF1
Location 7,030,849 – 7,030,949
Length 100
Max. P 0.964166
window3880

overview

Window 0

Location 7,030,849 – 7,030,949
Length 100
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 76.29
Mean single sequence MFE -28.20
Consensus MFE -15.35
Energy contribution -15.93
Covariance contribution 0.59
Combinations/Pair 1.18
Mean z-score -2.32
Structure conservation index 0.54
SVM decision value 1.56
SVM RNA-class probability 0.964166
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7030849 100 - 23771897
UUUUAUAUAUCAGUGC-ACUUGUUGGU-----GGCGCCACCAUCGC-UGGCGUAUUUGCUUAUUGUGUUUGUAAACAUUGCUAACAACUUGAGUAAUGCCGGCGACA
................-......((((-----(....)))))((((-((((((...((((((...((((.(((.....))).))))...)))))))))))))))).. ( -33.20)
>DroGri_CAF1 65562 93 - 1
UUUGAUAC-----UAUAACUUGUUGUU-----GUC---GCUAUCGU-CAGCGUAUUUGCUUAUUGUGUUUGUAAACAUUGCUAACAACUUGAGUAAUGUCGGCGACA
...(((((-----.(((((.....)))-----)).---).))))((-(..((...(((((((...((((.(((.....))).))))...)))))))...))..))). ( -21.50)
>DroEre_CAF1 52252 100 - 1
AUUUUUAUCACCGUGC-ACUUGUUGGU-----GGCGCCACCGUCGC-UGGCGUAUUUGCUUAUUGUGUUUGUAAACAUUGCUAACAACUUGAGUAAUGCCGGCGACA
................-.......(((-----(....))))(((((-((((((...((((((...((((.(((.....))).))))...))))))))))))))))). ( -36.40)
>DroWil_CAF1 85576 90 - 1
-------------AGC-AA---UUGGUGCGCUGCCGUUACUGCUGCUUGGAGUAUUUGCUUAUUGUGUUUGUAAACAUUGCUAACAACUUGAGUAAUGCCGGCGACA
-------------.((-(.---....)))(.(((((.((((.(.....).)))).(((((((...((((.(((.....))).))))...)))))))...))))).). ( -22.90)
>DroYak_CAF1 51409 100 - 1
AAUUUUAUCUCUGUGC-ACUUGUUGGU-----GGCGCCACCAACGC-UGGCGUAUUUGCUUAUUGUGUUUGUAAACAUUGCUAACAACUUGAGUAAUGCCGGCGACA
................-....((((((-----(....)))))))((-((((((...((((((...((((.(((.....))).))))...)))))))))))))).... ( -34.60)
>DroAna_CAF1 61773 89 - 1
ACUUUUCUCCACGUGC-A------GCU-----CCCGCUACUCGUGC------UAUUUGCUUAUUGUGUUUGUAAACAUUGCUAACAACUUGAGUAAUGCCGGCGACA
.....((.(((((.(.-(------((.-----...))).).)))((------...(((((((...((((.(((.....))).))))...))))))).)).)).)).. ( -20.60)
>consensus
AUUUUUAUC_C_GUGC_ACUUGUUGGU_____GGCGCCACCAUCGC_UGGCGUAUUUGCUUAUUGUGUUUGUAAACAUUGCUAACAACUUGAGUAAUGCCGGCGACA
...........................................(((.((((((...((((((...((((.(((.....))).))))...)))))))))))))))... (-15.35 = -15.93 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:13 2006