Locus 5156

Sequence ID 3L_DroMel_CAF1
Location 14,161,236 – 14,161,384
Length 148
Max. P 0.999476
window8157 window8158

overview

Window 7

Location 14,161,236 – 14,161,345
Length 109
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 76.44
Mean single sequence MFE -22.33
Consensus MFE -16.49
Energy contribution -16.17
Covariance contribution -0.33
Combinations/Pair 1.14
Mean z-score -2.66
Structure conservation index 0.74
SVM decision value 3.64
SVM RNA-class probability 0.999476
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14161236 109 + 23771897
GCUAAUUUAGUAGAUUAGCUUAUUUGAGGGUUAAGUGAGAGAUAAAAGUAGAGUUGGUGGAAUACUACCAAAAAAA--AAAAAAUUAAACUACUGAAUUCUGGAAAAUUGC
...((((((((((.(((((((((((((...)))))))))..............(((((((....))))))).....--......)))).))))))))))............ ( -22.40)
>DroSim_CAF1 162056 107 + 1
GCUAAUUUAGUAGAUUAGCUCAUUUGAGAGUUAAGUGAGAGAUAAAAGUGGAGUUGGUGGAAUACUACCAAAAAU----AAUAAUUAAACGACUGAAUUCUGAAAAAUUGU
(((((((.....)))))))...(((.((((((.(((............((...(((((((....)))))))...)----)...........))).)))))).)))...... ( -21.80)
>DroEre_CAF1 159853 89 + 1
GCUA-UUUAGUAGAUUAGCUUAUUUGGCUGUUAAGUGAGAGAUAAAAGUGGAGUUGGUGGAAUACCACCAAAAAUUCACAAUAUUUAUAC---------------------
((((-.((....)).))))...(((.(((....))).))).......(((((.(((((((....)))))))...)))))...........--------------------- ( -22.80)
>consensus
GCUAAUUUAGUAGAUUAGCUUAUUUGAGAGUUAAGUGAGAGAUAAAAGUGGAGUUGGUGGAAUACUACCAAAAAU____AAUAAUUAAAC_ACUGAAUUCUG_AAAAUUG_
(((((((.....)))))))((((((((...))))))))...............(((((((....)))))))........................................ (-16.49 = -16.17 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,161,273 – 14,161,384
Length 111
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 84.10
Mean single sequence MFE -18.49
Consensus MFE -14.18
Energy contribution -14.84
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.77
SVM decision value -0.01
SVM RNA-class probability 0.527020
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14161273 111 + 23771897
AGAGAUAAAAGUAGAGUUGGUGGAAUACUACCAAAAAAA--AAAAAAUUAAACUACUGAAUUCUGGAAAAUUGCCUGCUAAAUAUUCAUUCAAGCAUUGCUAGCAUUCAAGUG
.........(((((..(((((((....))))))).....--...........)))))((((.((((.....(((.((.............)).)))...)))).))))..... ( -17.79)
>DroSec_CAF1 158934 103 + 1
AGAGAUAAAAGUGGAGUUGGUGGAAUACUACCAAAAAAAAAAAAAAAUAAAACUACUGAAUUCUGGAAAAUUGUUUGCAAACUA----------CGUUGCUAGAAUUCAAGUG
.........(((((..(((((((....)))))))..................)))))(((((((((......(((....)))..----------.....)))))))))..... ( -20.07)
>DroSim_CAF1 162093 99 + 1
AGAGAUAAAAGUGGAGUUGGUGGAAUACUACCAAAAAU----AAUAAUUAAACGACUGAAUUCUGAAAAAUUGUUUGCUAACUA----------CGUUGCUAGAAUUCAAGUG
................(((((((....)))))))....----............(((((((((((..((...(((....)))..----------..))..)))))))).))). ( -17.60)
>consensus
AGAGAUAAAAGUGGAGUUGGUGGAAUACUACCAAAAAAA__AAAAAAUUAAACUACUGAAUUCUGGAAAAUUGUUUGCUAACUA__________CGUUGCUAGAAUUCAAGUG
................(((((((....)))))))....................((((((((((((.................................))))))))).))). (-14.18 = -14.84 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:14 2006