Locus 5490

Sequence ID 3L_DroMel_CAF1
Location 15,047,998 – 15,048,223
Length 225
Max. P 0.708032
window8681 window8682

overview

Window 1

Location 15,047,998 – 15,048,118
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.56
Mean single sequence MFE -41.98
Consensus MFE -25.83
Energy contribution -26.08
Covariance contribution 0.25
Combinations/Pair 1.28
Mean z-score -2.21
Structure conservation index 0.62
SVM decision value 0.18
SVM RNA-class probability 0.623235
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15047998 120 - 23771897
AUGAGUCUAAAACUCUGCUGCAGCCAGGAGCACAUAAAACUGGGGGCAGCAGUUCCAGUUUGGUGAGUUUAAAUAUGCUUAAGCAGCUGGAGGCCAAGGUACAGGAACUACACACCCAAC
.((.(((.......(((((((..((((............))))..))))))).(((((((...(((((........)))))...)))))))))))).(((...(......)..))).... ( -35.90)
>DroPse_CAF1 15934 120 - 1
ACGAGUCAAAAACACUGCUGCAGCAGGCGGCCAAGGCAUCGCAAGGCAGCCAUUCCAGCUUGGUGAGCUUGAACAUGCUCAGACAGCUGGAGGCCAAGGUCCAGGAGCUGCACACCCAGC
..(..((.......((((....))))..((((..(((.((....))..)))..(((((((.(.(((((........)))))..))))))))))))..))..)....((((......)))) ( -45.10)
>DroSim_CAF1 15056 120 - 1
AUGAGUCCAAAACUCUGCUGCAGCCAGGAGCACAUAAAACUGGAGGCAGCAGUUCCAGUUUGGUGAGUUUAAAUAUGCUAAAGCAACUGGAGGCCAAGGUACAGGAGCUACACACCCAAC
.........((((((((((((..((((............))))..)))))))....)))))(((((((........)))..(((..(((...((....)).)))..)))...)))).... ( -36.50)
>DroEre_CAF1 15497 120 - 1
ACGAGUCUAAAACUCUGCUGCAGCCAGGAGCACAUAAAGCUGGAGGCAGCAGUUCCAGUUUGGUGAGUCUAAACAUGCUUAAGCAACUGGAGGCCAAAGUGCAGGAACUGCACACCCAAC
..(.(((.......(((((((..((((............))))..))))))).(((((((...(((((........)))))...)))))))))))...((((((...))))))....... ( -41.70)
>DroAna_CAF1 15499 120 - 1
AUGAGUCCAAAACGCUGCUCCAGGCAGGGGCAACUAAGGUUGGAGGCAGCAGUUCCAGUUUGGCCAGCUUAAACAUGCUGAGGCAACUGGAGGCCAAGGUCCAGGAACUGCACACCCAGC
.............((((((((((.(..((....))..).))))))...(((((((((.((((((((((........))).((....))...))))))).)...)))))))).....)))) ( -47.70)
>DroPer_CAF1 15957 120 - 1
ACGAGUCAAAAACACUGCUGCAGCAGGCGGCCAAGGCAUCGCAAGGCAGCCAUUCCAGCUUGGUGAGCUUGAACAUGCUCAGGCAGCUGGAGGCCAAGGUCCAGGAGCUGCACACCCAGC
..(..((.......((((....))))..((((..(((.((....))..)))..(((((((...(((((........)))))...)))))))))))..))..)....((((......)))) ( -45.00)
>consensus
ACGAGUCAAAAACUCUGCUGCAGCCAGGAGCAAAUAAAACUGGAGGCAGCAGUUCCAGUUUGGUGAGCUUAAACAUGCUCAAGCAACUGGAGGCCAAGGUCCAGGAACUGCACACCCAAC
..(.(((.......(((((((...(((............)))...))))))).(((((((...(((((........)))))...)))))))))))..(((......)))........... (-25.83 = -26.08 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,048,118 – 15,048,223
Length 105
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 82.92
Mean single sequence MFE -37.57
Consensus MFE -26.15
Energy contribution -26.57
Covariance contribution 0.42
Combinations/Pair 1.28
Mean z-score -2.14
Structure conservation index 0.70
SVM decision value 0.37
SVM RNA-class probability 0.708032
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15048118 105 + 23771897
CCAAGGAGAGGGAAGGCGGAUCCUGCUCCUCUUCCAUAGUUGUGCUCAUCGAGAGAAGUCUCUCGCUUUCUUCGGUAAUAUCCUCCAGAACAUCCUUGGAGAACU
(((((((...((((((.(((......)))))))))...(((.((.....((((((....))))))........((......))..)).))).)))))))...... ( -34.90)
>DroGri_CAF1 15983 96 + 1
CCAGGGACAGCGAUUUCGGC------UCCU---CCACUGUGGUGCUCAGCGAAAGUAGACGUUCACUCUCCUCGGUAAUGUCCUCGAGCACAUCCUUGCUGAACU
...((..((((((....((.------....---))......((((((.((....)).((((((.(((......)))))))))...))))))....))))))..)) ( -28.20)
>DroSim_CAF1 15176 105 + 1
CCAAGGAGAGGGAAGGCGGAUCCUGCUCCUCUUCGAUAGUUGUGCUCAUGGAGAGCAGUCUCUCGCUUUCUUCGGUUAUAUCCUCCAGAACAUCCUUGGAGAACU
(((((((((((.((((((((..((((((.(((..((.........))..)))))))))..)).))))))))))((......)).........)))))))...... ( -38.10)
>DroEre_CAF1 15617 105 + 1
CUAAGGAGAGGGAAGGCGGAUCCUGCUCCUCUUCGACAGUUGUGCUCAGGGAGAGCAUUCUCUCGCUUUCCUCGGUGAUAUCCUCCAGAACAUCCUUGGAGAACU
(((((((((((.((((((((...(((((.(((..((((....)).))..))))))))...)).))))))))))((.(.....).))......)))))))...... ( -37.30)
>DroYak_CAF1 15682 105 + 1
CCAAGGAGAGCGAAGGCGGAUCCUGCUCCUCUUCGAUAGUUGUGCUCAUGGAGAGCAGUCUCUCGCUUUCCUCGGUGAUAUCCUCCAGGACAUCCUUGGAGAACU
((((((((((.(((((((((..((((((.(((..((.........))..)))))))))..)).)))))))))).......(((....)))..)))))))...... ( -42.00)
>DroAna_CAF1 15619 105 + 1
CCAGGGACAGCGAAGGUGGGUCCUGCUCCUCUUCAAUGGUGGUGCUCAUGGAGAGCUGUCGUUCGCUCUCCUCGGUGAUAUCCUCCAGCACGUCCUUGGAGAACU
((((((((.(((((((.(((.....))).)))))..(((.((...(((((((((((........)))))))...))))...)).)))))..))))))))...... ( -44.90)
>consensus
CCAAGGAGAGCGAAGGCGGAUCCUGCUCCUCUUCGAUAGUUGUGCUCAUGGAGAGCAGUCUCUCGCUUUCCUCGGUGAUAUCCUCCAGAACAUCCUUGGAGAACU
(((((((....(((((.(((......))))))))....(((.((.....(((((((........)))))))..((......))..)).))).)))))))...... (-26.15 = -26.57 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:37 2006