Locus 4004

Sequence ID 2L_DroMel_CAF1
Location 11,639,037 – 11,639,131
Length 94
Max. P 0.639705
window6312

overview

Window 2

Location 11,639,037 – 11,639,131
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.43
Mean single sequence MFE -32.95
Consensus MFE -9.90
Energy contribution -10.44
Covariance contribution 0.54
Combinations/Pair 1.17
Mean z-score -3.88
Structure conservation index 0.30
SVM decision value 0.22
SVM RNA-class probability 0.639705
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11639037 94 - 22407834
CGUCACUUGUUUGACAUAUCUACAAGGCGCAAUCUGAUUGCGC-------C-GCAUA------UAUGUUUGUGUGCU----------UAAUGAUAUGUACA-AG-GACUGGCCAAACAUU
.(((.(((((...(((((((.....((((((((...)))))))-------)-(((((------((....))))))).----------....))))))))))-))-)))............ ( -35.10)
>DroPse_CAF1 87657 103 - 1
CGUCACUUGUCUGACAUAUCUACAAGGCGCAAUCUGAGGGGGGGUCACCCCUCCCCU------UGUGUGUGUGUGUU----------UAAUGAUAUGUACA-AAAGCUUGACCAAACAUU
.(((((((.....(((((((.(((..(((((...((((((((((.....))))))))------))..))))).))).----------....)))))))...-.)))..))))........ ( -35.50)
>DroSim_CAF1 96267 94 - 1
CGUCACUUGUUUGACAUAUCUACAAGGCGCAAUCUGAUUGCGC-------C-GCAUA------UAUGUUUGUGUGCU----------UAAUGAUAUGUACA-AG-GACUGGCCAAACAUU
.(((.(((((...(((((((.....((((((((...)))))))-------)-(((((------((....))))))).----------....))))))))))-))-)))............ ( -35.10)
>DroEre_CAF1 122482 94 - 1
CGUCACUUGUUUGACAUAUCUACAAGGCGCAAUCUGAUUGCGC-------C-GCACA------UUUGUUUGUGUGCU----------UAAUGAUAUGUACA-AG-GACUGGCCAAACAUU
.(((.(((((...(((((((.....((((((((...)))))))-------)-(((((------(......)))))).----------....))))))))))-))-)))............ ( -35.90)
>DroYak_CAF1 95883 110 - 1
CGUCACUUGUUUGACAUAUCUACAAGGCGCAAUCUGAUUGCGC-------C-GCAUAAACGAGUAUGUUUGUGUGAUAUGUAACAACUAAUGAUAUGUACA-AG-GACUGGCCAAACAUU
.(((.(((((...(((((((.....((((((((...)))))))-------)-((((((((......)))))))).................))))))))))-))-)))............ ( -35.00)
>DroAna_CAF1 105923 86 - 1
CGUCACUUGUUUGACAUAUCUACGAGGCGAAAUCAGAUUG-----------------------UACGUUUGUGUGCU----------UAAUGAUAUGUACAAAG-GCCUGCCCAAACAUU
.......(((((((((((((....(((((....(((((..-----------------------...)))))..))))----------)...))))))).....(-(....)))))))).. ( -21.10)
>consensus
CGUCACUUGUUUGACAUAUCUACAAGGCGCAAUCUGAUUGCGC_______C_GCAUA______UAUGUUUGUGUGCU__________UAAUGAUAUGUACA_AG_GACUGGCCAAACAUU
.((((.((...(((((((((.....((((((.......(((...........)))................))))))..............))))))).))....)).))))........ ( -9.90 = -10.44 +   0.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:55 2006