Locus 5241

Sequence ID 3L_DroMel_CAF1
Location 14,467,827 – 14,467,927
Length 100
Max. P 0.964176
window8290 window8291

overview

Window 0

Location 14,467,827 – 14,467,927
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 92.50
Mean single sequence MFE -33.20
Consensus MFE -28.77
Energy contribution -29.27
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.38
Structure conservation index 0.87
SVM decision value 1.56
SVM RNA-class probability 0.964176
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14467827 100 + 23771897
UGGGGCUCGUUGGGUUCUCUAUAUGCACUUAGCUGUAUUCAGCUUUCUGACACAAAAGUGCAGCUGGGCUUGGCUCCUGCGAGUUCUGUUUUGUUUUUGC
.(((((((((.((((((((....((((((((((((....)))))...........)))))))...)))...))).)).)))))))))............. ( -31.80)
>DroSec_CAF1 64750 100 + 1
UGGGGCUCGUUGGGUUCUCUAUAUGCACUUAGCUGUAUUCAGCUUUCUGACACAAAAGUGCAGCUGGGCUUGGCUCCUGCGAGUUCUGUUUUGUUUUUGC
.(((((((((.((((((((....((((((((((((....)))))...........)))))))...)))...))).)).)))))))))............. ( -31.80)
>DroSim_CAF1 79954 100 + 1
UGGGGCUCGUUGGGUUCUCUAUAUGCACUUAGCUGUAUUCAGCUUUCUGACACAAAAGUGCAGCUGGGCUUGGCUCCUGCGAGUUCUGUUUUGUUUUUGC
.(((((((((.((((((((....((((((((((((....)))))...........)))))))...)))...))).)).)))))))))............. ( -31.80)
>DroEre_CAF1 80505 91 + 1
AGGGGCUCGUUGGGUUCUCUAUGUGCAGUUAGCUGUAGUCAGCUUUCUGACACAAAAGUGCAGCUGGGCUUGGCUGCUGCGAGUUCUGUGU---------
.(((((((((...........(((((((..(((((....)))))..))).)))).....((((((......)))))).)))))))))....--------- ( -37.40)
>consensus
UGGGGCUCGUUGGGUUCUCUAUAUGCACUUAGCUGUAUUCAGCUUUCUGACACAAAAGUGCAGCUGGGCUUGGCUCCUGCGAGUUCUGUUUUGUUUUUGC
.(((((((((.(((((.((((..((((((((((((....)))))...........)))))))..))))...)))))..)))))))))............. (-28.77 = -29.27 +   0.50)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,467,827 – 14,467,927
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 92.50
Mean single sequence MFE -24.12
Consensus MFE -19.80
Energy contribution -20.30
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.82
SVM decision value 0.87
SVM RNA-class probability 0.871273
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14467827 100 - 23771897
GCAAAAACAAAACAGAACUCGCAGGAGCCAAGCCCAGCUGCACUUUUGUGUCAGAAAGCUGAAUACAGCUAAGUGCAUAUAGAGAACCCAACGAGCCCCA
.................(((((.((.((...)))).))((((((((((((((((....))).))))))..)))))))....)))................ ( -22.70)
>DroSec_CAF1 64750 100 - 1
GCAAAAACAAAACAGAACUCGCAGGAGCCAAGCCCAGCUGCACUUUUGUGUCAGAAAGCUGAAUACAGCUAAGUGCAUAUAGAGAACCCAACGAGCCCCA
.................(((((.((.((...)))).))((((((((((((((((....))).))))))..)))))))....)))................ ( -22.70)
>DroSim_CAF1 79954 100 - 1
GCAAAAACAAAACAGAACUCGCAGGAGCCAAGCCCAGCUGCACUUUUGUGUCAGAAAGCUGAAUACAGCUAAGUGCAUAUAGAGAACCCAACGAGCCCCA
.................(((((.((.((...)))).))((((((((((((((((....))).))))))..)))))))....)))................ ( -22.70)
>DroEre_CAF1 80505 91 - 1
---------ACACAGAACUCGCAGCAGCCAAGCCCAGCUGCACUUUUGUGUCAGAAAGCUGACUACAGCUAACUGCACAUAGAGAACCCAACGAGCCCCU
---------........((((..(((((........))))).((((((((.(((..(((((....)))))..))))))).)))).......))))..... ( -28.40)
>consensus
GCAAAAACAAAACAGAACUCGCAGGAGCCAAGCCCAGCUGCACUUUUGUGUCAGAAAGCUGAAUACAGCUAAGUGCAUAUAGAGAACCCAACGAGCCCCA
.................((((..(((((........)))(((((((((((((((....)))).)))))..))))))...........))..))))..... (-19.80 = -20.30 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:19 2006