Locus 1986

Sequence ID 3R_DroMel_CAF1
Location 5,618,699 – 5,618,791
Length 92
Max. P 0.670607
window3247

overview

Window 7

Location 5,618,699 – 5,618,791
Length 92
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 83.98
Mean single sequence MFE -17.18
Consensus MFE -13.57
Energy contribution -13.55
Covariance contribution -0.02
Combinations/Pair 1.20
Mean z-score -1.84
Structure conservation index 0.79
SVM decision value 0.29
SVM RNA-class probability 0.670607
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5618699 92 + 27905053
UAAAUUAGAUUUAAUUGCAACUGUUUGUGUAACGCACAAAAAUAUUCAUUCUUGCUGCUAUUCAGCAUAGA------UAUAAUUUUGAUACCAAAUAU
...((((((.(((..........((((((.....)))))).........((((((((.....))))).)))------..))).))))))......... ( -14.60)
>DroPse_CAF1 1397 91 + 1
UAAAUUAGAUUUAAGAACGACCUAUUGUGUCAAGCACAAAUG-------UUAAGCUGUUGCUUAGCAUAGAAAUAAGUAUAGUUUUGAGACCAAAUAU
.((((((.(((((...........(((((.....)))))(((-------((((((....))))))))).....))))).))))))............. ( -18.80)
>DroSec_CAF1 1409 92 + 1
UAAAUUAGAUUUAAUUGCAAAUGUUUGUGUAACGCACAAAUAUAUUCACUCUUGCUGCUAUUCAGCAUAGA------UAUAAUUUUGAUACCAAAUAU
...((((((.(((.......(((((((((.....)))))))))......((((((((.....))))).)))------..))).))))))......... ( -18.00)
>DroSim_CAF1 1409 92 + 1
UAAAUUAGAUUUAAUUGCAAAUGUUUGUGUAACGCACAAAUAUAUUCAUUCUUGCUGCUAUUCAGCAUAGA------UAUAAUUUUGAUACCAAAUAU
...((((((.(((.......(((((((((.....)))))))))......((((((((.....))))).)))------..))).))))))......... ( -18.10)
>DroEre_CAF1 1408 88 + 1
UAAAUUAGAUUUAAGAGCAACUGUUUGUGUAAGGCACAAAUA----CCUUCUGGCUGCUAUUCAGCUUAGA------UAUAAUUUUGAUACCAAAUAU
.((((((.(((((((((((..((((((((.....))))))))----((....)).))))......))))))------).))))))............. ( -16.90)
>DroYak_CAF1 1335 88 + 1
UAAAUUAGAUUUAAGUGCAACUGUUUGUGUAAGGCACAAAUA----CAUUCUGGCUGCUAUUCAGCUUAGA------UAUAAUUUUGAUACCAAAUAU
...((((((.(((........((((((((.....))))))))----...((((((((.....)))).))))------..))).))))))......... ( -16.70)
>consensus
UAAAUUAGAUUUAAGUGCAACUGUUUGUGUAACGCACAAAUA____CAUUCUUGCUGCUAUUCAGCAUAGA______UAUAAUUUUGAUACCAAAUAU
...((((((.(((........((((((((.....)))))))).......((((((((.....))))).)))........))).))))))......... (-13.57 = -13.55 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:23 2006