Locus 6440

Sequence ID 2L_DroMel_CAF1
Location 18,098,718 – 18,098,826
Length 108
Max. P 0.998281
window10287 window10288

overview

Window 7

Location 18,098,718 – 18,098,826
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 94.55
Mean single sequence MFE -31.42
Consensus MFE -28.34
Energy contribution -28.58
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.94
Structure conservation index 0.90
SVM decision value 2.59
SVM RNA-class probability 0.995594
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18098718 108 + 22407834
GGGGGGGGUGAACAGGAAAAGCUGGAAAAGCGACUUGGUGUUGCCACCUAGUUGCAAAUUGUACGCAAGGGUUUCCUUAAAGCAAUUAUUGUAUCACGCAGUUUUGUU
.....(.((((((((.....((((((((.((((((.((((....)))).))))))........(....)..)))))....))).....)))).)))).)......... ( -30.40)
>DroSec_CAF1 11772 105 + 1
--G-GAAAAAAACAGGAAAAGCUGGAAAAGCGACUUGGUGUUGCCACCUAGUUGCAAAUUGUACGCAAGGGUUUCCUUGGAGCAAUUAUUGUAUCACGCAGUUUUGCU
--.-..........((.(((((((.....((((((.((((....)))).)))))).((((((.(.(((((....)))))).))))))...........))))))).)) ( -31.40)
>DroSim_CAF1 11846 106 + 1
--GGGAAAAAAACAGGAAAAGCUGGAAAAGCGACUUGGUGUUGCCACCUAGUUGCAAAUUGUACGCAAGGGUUUCCUUGGAGCAAUUAUUGUAUCACGCAGUUUUGCU
--............((.(((((((.....((((((.((((....)))).)))))).((((((.(.(((((....)))))).))))))...........))))))).)) ( -31.40)
>DroEre_CAF1 19791 105 + 1
--G-GGGAAAAACAGGAAAAGCUGGAAAAGCGACUUGGUGUUGCCACCUAGUUGCAAAUUGUACGCAAGGGUUUCCUCGCAGCAAUUAUUGUAUCACGCAGUUUUGCU
--(-((((((..(((......))).....((((((.((((....)))).))))))........(....)..)))))))..(((((..(((((.....))))).))))) ( -32.80)
>DroYak_CAF1 11973 105 + 1
--G-GGAAAAAACAGGAAAAGCUGGAAAAGCGACUUGGUGUUGCCACCUAGUUGCAAAUUGUACGCAAGGGUUUCCUUGAAGCAAUUAUUGUAUCACGCAGUUUUGCU
--.-..........((.(((((((.....((((((.((((....)))).)))))).((((((...(((((....)))))..))))))...........))))))).)) ( -31.10)
>consensus
__G_GGAAAAAACAGGAAAAGCUGGAAAAGCGACUUGGUGUUGCCACCUAGUUGCAAAUUGUACGCAAGGGUUUCCUUGAAGCAAUUAUUGUAUCACGCAGUUUUGCU
..............((.(((((((.....((((((.((((....)))).)))))).((((((...(((((....)))))..))))))...........))))))).)) (-28.34 = -28.58 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,098,718 – 18,098,826
Length 108
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 94.55
Mean single sequence MFE -25.90
Consensus MFE -23.02
Energy contribution -22.90
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -2.22
Structure conservation index 0.89
SVM decision value 3.05
SVM RNA-class probability 0.998281
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18098718 108 - 22407834
AACAAAACUGCGUGAUACAAUAAUUGCUUUAAGGAAACCCUUGCGUACAAUUUGCAACUAGGUGGCAACACCAAGUCGCUUUUCCAGCUUUUCCUGUUCACCCCCCCC
...........((((.(((..((..(((.(((((....)))))..........((.(((.((((....)))).))).))......)))..))..)))))))....... ( -25.50)
>DroSec_CAF1 11772 105 - 1
AGCAAAACUGCGUGAUACAAUAAUUGCUCCAAGGAAACCCUUGCGUACAAUUUGCAACUAGGUGGCAACACCAAGUCGCUUUUCCAGCUUUUCCUGUUUUUUUC-C--
.(((....)))(((((.....(((((..((((((....))))).)..)))))........((((....))))..))))).....(((......)))........-.-- ( -25.00)
>DroSim_CAF1 11846 106 - 1
AGCAAAACUGCGUGAUACAAUAAUUGCUCCAAGGAAACCCUUGCGUACAAUUUGCAACUAGGUGGCAACACCAAGUCGCUUUUCCAGCUUUUCCUGUUUUUUUCCC--
.(((....)))(((((.....(((((..((((((....))))).)..)))))........((((....))))..))))).....(((......)))..........-- ( -25.00)
>DroEre_CAF1 19791 105 - 1
AGCAAAACUGCGUGAUACAAUAAUUGCUGCGAGGAAACCCUUGCGUACAAUUUGCAACUAGGUGGCAACACCAAGUCGCUUUUCCAGCUUUUCCUGUUUUUCCC-C--
.(((....)))..((.(((..((..(((((((((....)))))).........((.(((.((((....)))).))).))......)))..))..)))...))..-.-- ( -29.70)
>DroYak_CAF1 11973 105 - 1
AGCAAAACUGCGUGAUACAAUAAUUGCUUCAAGGAAACCCUUGCGUACAAUUUGCAACUAGGUGGCAACACCAAGUCGCUUUUCCAGCUUUUCCUGUUUUUUCC-C--
.(((((..((((..((......))..)..(((((....))))).)))...))))).(((.((((....)))).))).(((.....)))................-.-- ( -24.30)
>consensus
AGCAAAACUGCGUGAUACAAUAAUUGCUCCAAGGAAACCCUUGCGUACAAUUUGCAACUAGGUGGCAACACCAAGUCGCUUUUCCAGCUUUUCCUGUUUUUUCC_C__
.(((((..((((..((......))..)..(((((....))))).)))...))))).(((.((((....)))).))).(((.....))).................... (-23.02 = -22.90 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:18 2006