Locus 4162

Sequence ID 3L_DroMel_CAF1
Location 12,151,675 – 12,151,785
Length 110
Max. P 0.892004
window6460 window6461

overview

Window 0

Location 12,151,675 – 12,151,785
Length 110
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 73.90
Mean single sequence MFE -21.50
Consensus MFE -9.38
Energy contribution -10.50
Covariance contribution 1.12
Combinations/Pair 1.17
Mean z-score -2.61
Structure conservation index 0.44
SVM decision value 0.97
SVM RNA-class probability 0.892004
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12151675 110 + 23771897
AAUGACAUUUAUGUAUGUACAUAUG--UACAUACAUAUUUGCUCGCUUGACAUAUCACGGAGGUCGUUUUAAUACACGCCUUACCUGAUUUUUUUAACCCUCGGCUUGCCCA
...((((..(((((((((((....)--))))))))))..)).))..((((...((((..((((.(((........)))))))...))))....)))).....((....)).. ( -26.60)
>DroSec_CAF1 28850 96 + 1
CA-GACAUUUAUGUACAAACAUACAUUUAUGUAC---------------AUAUAUCACGGAGGUCGUUUUAAUACACGCCUUACCUGAUUUUUUUAACCCUCGUUUGGCCCA
((-(((...((((((((............)))))---------------))).((((..((((.(((........)))))))...)))).............)))))..... ( -19.30)
>DroSim_CAF1 29229 96 + 1
CA-GACAUUUAUGUACAUACAUACAUUUAUGUAC---------------AUAUAUCACGGAGGUCGUUUUAAUACACGCCUUACCUGAUUUUUUUAACCCUCGUUUUGCCCA
.(-(((...((((((((((........)))))))---------------))).((((..((((.(((........)))))))...)))).............))))...... ( -19.20)
>DroEre_CAF1 26327 86 + 1
CA-GACAUUUAUGUUCCC------------------------CCGCUUGACAUAUCACGGAGGUCGUUUUAAUACACGCCUCACCUGAUUUCUC-GAGCCUCGGCUUGCCCA
..-((((....))))...------------------------..((((((...((((.(((((.(((........))))))).).))))...))-))))...((....)).. ( -20.90)
>consensus
CA_GACAUUUAUGUACAUACAUACA__UAUGUAC_______________ACAUAUCACGGAGGUCGUUUUAAUACACGCCUUACCUGAUUUUUUUAACCCUCGGCUUGCCCA
............(((((((........)))))))...................((((..((((.(((........)))))))...))))....................... ( -9.38 = -10.50 +   1.12)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 12,151,675 – 12,151,785
Length 110
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 73.90
Mean single sequence MFE -25.05
Consensus MFE -12.71
Energy contribution -14.27
Covariance contribution 1.56
Combinations/Pair 1.09
Mean z-score -2.12
Structure conservation index 0.51
SVM decision value 0.70
SVM RNA-class probability 0.826974
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12151675 110 - 23771897
UGGGCAAGCCGAGGGUUAAAAAAAUCAGGUAAGGCGUGUAUUAAAACGACCUCCGUGAUAUGUCAAGCGAGCAAAUAUGUAUGUA--CAUAUGUACAUACAUAAAUGUCAUU
..((((((((...))))......((((((..((((((........))).))))).)))).))))....((.((..((((((((((--(....)))))))))))..))))... ( -30.00)
>DroSec_CAF1 28850 96 - 1
UGGGCCAAACGAGGGUUAAAAAAAUCAGGUAAGGCGUGUAUUAAAACGACCUCCGUGAUAUAU---------------GUACAUAAAUGUAUGUUUGUACAUAAAUGUC-UG
.((((...(((..((((.....(((((.(.....).)).))).....))))..)))....(((---------------(((((............))))))))...)))-). ( -19.90)
>DroSim_CAF1 29229 96 - 1
UGGGCAAAACGAGGGUUAAAAAAAUCAGGUAAGGCGUGUAUUAAAACGACCUCCGUGAUAUAU---------------GUACAUAAAUGUAUGUAUGUACAUAAAUGUC-UG
.(((((..(((..((((.....(((((.(.....).)).))).....))))..)))....(((---------------(((((((........))))))))))..))))-). ( -24.50)
>DroEre_CAF1 26327 86 - 1
UGGGCAAGCCGAGGCUC-GAGAAAUCAGGUGAGGCGUGUAUUAAAACGACCUCCGUGAUAUGUCAAGCGG------------------------GGGAACAUAAAUGUC-UG
.(((((.(((...((..-((....))..))..)))..............(((((((..........))))------------------------)))........))))-). ( -25.80)
>consensus
UGGGCAAAACGAGGGUUAAAAAAAUCAGGUAAGGCGUGUAUUAAAACGACCUCCGUGAUAUAU_______________GUACAUA__UGUAUGUAUGUACAUAAAUGUC_UG
..((((.................((((((..((((((........))).))))).))))...................(((((((........))))))).....))))... (-12.71 = -14.27 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:49 2006