Locus 7278

Sequence ID X_DroMel_CAF1
Location 18,120,534 – 18,120,730
Length 196
Max. P 0.980564
window11920 window11921

overview

Window 0

Location 18,120,534 – 18,120,653
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.64
Mean single sequence MFE -44.38
Consensus MFE -39.84
Energy contribution -40.04
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.90
SVM decision value 1.86
SVM RNA-class probability 0.980564
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18120534 119 - 22224390
GAGCCAGCGAUU-UAGGUUCGUGGGAGAGUCGCGAAUCAGAAACUCCACGCGAAUCGUUUUACAAUCGGAACUAUUGGAGUUACUGGACACUGGACACACGCCCUGGUGGGCGGUCUUCG
..(((((..(((-(.((((((((((((..((........))..)))).))))))))(((((......))))).....))))..)))).)...(((.((.(((((....))))))).))). ( -43.60)
>DroSec_CAF1 3152 119 - 1
GAGCCAGCGAUU-UGGGUUCGUGGGAGAGUCGGGAAUCAGAAACUCCACGCGAAUCGUUUUACAAUCGGAACUAUGGGAGUUACUGGACACUGGACACACGCCCUGGUGGGCGGUCUUUG
..(((((..(((-(.((((((((((((..((........))..)))).))))))))(((((......))))).....))))..)))).)...((((...(((((....)))))))))... ( -42.20)
>DroSim_CAF1 3426 119 - 1
GAGCCAGCGAUU-UGGGUUCGUGGGAGAGUCGCGAAUCAGAAACUCCACGCGAAUCGUUUUACAAUCGGAACUAUUGGAGUUACUGGACACUGGACACACGCCCUGGUGGGCGGUCUUCG
..(((((..(((-(.((((((((((((..((........))..)))).))))))))(((((......))))).....))))..)))).)...(((.((.(((((....))))))).))). ( -43.40)
>DroEre_CAF1 3044 119 - 1
GAGCCAGUGAUU-UCGGUUCGUGGGAGAGUCGCGAAUGAGAAUCUCCACGCGAAUCGUUUUACAAUCGGAACUAUUGGAGUUACUGGACACUGGACACACGCCCUGGUGGGCGGUCUCAC
..((((((((((-(((((((((((((((.((........)).))))).))))))))(((((......)))))....))))))))))).)....((.((.(((((....))))))).)).. ( -51.10)
>DroYak_CAF1 3407 120 - 1
GAGCCAGCGAUUUUUGGUUCGUGGGAGAGUCGCGAAUCAGAAACUCCACGCGAAUCGUUUUACAAUCGGAACUAUUGCAGAUACUGGACACUGGCCACACGCCCUGGUGGGCGGUCUCCC
(.((((((((((..(((((((((((((..((........))..)))).)))))))))......))))).........(((...)))....))))))...(((((....)))))....... ( -41.60)
>consensus
GAGCCAGCGAUU_UGGGUUCGUGGGAGAGUCGCGAAUCAGAAACUCCACGCGAAUCGUUUUACAAUCGGAACUAUUGGAGUUACUGGACACUGGACACACGCCCUGGUGGGCGGUCUUCG
..(((((.(......((((((((((((..((........))..)))).)))))))).........((((((((.....)))).)))).).)))).)...(((((....)))))....... (-39.84 = -40.04 +   0.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,120,614 – 18,120,730
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.84
Mean single sequence MFE -48.66
Consensus MFE -34.92
Energy contribution -35.52
Covariance contribution 0.60
Combinations/Pair 1.11
Mean z-score -1.60
Structure conservation index 0.72
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18120614 116 - 22224390
AGCUCCUCG-AGUUCCCCGCA-CUCCUGGAGAAUCUUCCGUAUGGCGCG-GGAGAUUCCCACAGGCGGACGGCAAUCGCUGAGCCAGCGAUU-UAGGUUCGUGGGAGAGUCGCGAAUCAG
.....(.((-(.(..(((((.-..(((((.(((((((((((.....)))-)))))))).).)))).((((...((((((((...))))))))-...)))))))))..).))).)...... ( -50.30)
>DroSec_CAF1 3232 114 - 1
--CUCCUCGGCGCUCCCCGCU-CUCCUGGUGAAUCUUCCGUAUGGCG-G-GGAGAUUCCCACAGGCGGACGGAAAUCGCUGAGCCAGCGAUU-UGGGUUCGUGGGAGAGUCGGGAAUCAG
--...........((((.(((-(((((((.(((((((((........-)-))))))))))....((((((..(((((((((...))))))))-)..)))))))))))))).))))..... ( -55.50)
>DroSim_CAF1 3506 114 - 1
--CUCCUCGGCGCUCCCCGCU-CUCCUGGUGAAUCUUCCGUAUGGCG-G-GGAGAUUCCCACAGGCGGACGGAAAUCGCUGAGCCAGCGAUU-UGGGUUCGUGGGAGAGUCGCGAAUCAG
--.......(((((((((((.-..(((((.(((((((((........-)-)))))))).).)))).((((..(((((((((...))))))))-)..))))))))).))).)))....... ( -52.00)
>DroEre_CAF1 3124 112 - 1
--CUCCUCG-AGCUCCCCUUU-CUCCCGGAGAAUCUGCCGUUUGGCG-A-GGAGAUUCCCACAGGCGGACGG-AUUUGCUGAGCCAGUGAUU-UCGGUUCGUGGGAGAGUCGCGAAUGAG
--...((((-.((......((-(((((((.((((((.(((.....))-.-).))))))))....((((((.(-(.(..(((...)))..)..-)).)))))))))))))..))...)))) ( -41.40)
>DroYak_CAF1 3487 115 - 1
--CUUUUGA-AGCUCCCCUUCGCUCCUGGAGCAUCUUCCGUAUGGCG-GUGGAGAUUCCCACAGGCGGACGG-AGUCGCUGAGCCAGCGAUUUUUGGUUCGUGGGAGAGUCGCGAAUCAG
--..((((.-.((((..((((((((((((((....)))))...)).)-))))))..((((((..((.((..(-((((((((...))))))))))).))..))))))))))..)))).... ( -44.10)
>consensus
__CUCCUCG_AGCUCCCCGCU_CUCCUGGAGAAUCUUCCGUAUGGCG_G_GGAGAUUCCCACAGGCGGACGG_AAUCGCUGAGCCAGCGAUU_UGGGUUCGUGGGAGAGUCGCGAAUCAG
......(((..(((((((.........((.((((((((((.....))...))))))))))....((((((...((((((((...))))))))....))))))))).))))..)))..... (-34.92 = -35.52 +   0.60)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:56 2006