Locus 127

Sequence ID 2L_DroMel_CAF1
Location 386,095 – 386,226
Length 131
Max. P 0.775494
window197 window198

overview

Window 7

Location 386,095 – 386,200
Length 105
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 80.81
Mean single sequence MFE -25.76
Consensus MFE -15.99
Energy contribution -16.16
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.62
SVM decision value 0.54
SVM RNA-class probability 0.775494
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 386095 105 + 22407834
AGUGCAAUCAGGAGCCGGCUUCUU---GGGAAGGACUCCAUAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUG-
...(((((((((((....))))).---.(((.....))).......))))))...........((((((((..(((((((.........))))))).))))))))...- ( -28.70)
>DroVir_CAF1 21129 95 + 1
-CUGCAAUCAGCCACCGUU--CUC---------GAC-ACGAAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAUGGGCGUUUUCAAUAGUCACGCCCAUUAAUUGGCUG-
-.......((((((..(((--.(.---------.((-(..(((.......))).)))..).)))......(((((((((...(....)..)))))))))...))))))- ( -23.30)
>DroGri_CAF1 23436 96 + 1
GCUGCAAUCAGCAACCGUU--UGC---------GAC-CCGACUUCAGAUUGUUAUGUUAAAAACUAAUUAAAUGGGCGUUUUCAAUAGUCACGCCCAUUAAUUGGUUG-
((.((((((.((((....)--)))---------((.-......)).))))))...))....((((((((((.(((((((...(....)..))))))))))))))))).- ( -27.40)
>DroYak_CAF1 1643 108 + 1
AGUGCAAUCAGCAGCGGGCUUCUUCCCAAGAAGGACUCCGUAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUG-
...((((((....((((..((((((....))))))..)))).....))))))...........((((((((..(((((((.........))))))).))))))))...- ( -33.50)
>DroMoj_CAF1 1809 96 + 1
GCUGCAAUCAGCCACCGUU--CUC---------GAC-ACGAAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAUGGGCGUUUUCAAUAGUCACGCCCAUUAAUUGACUG-
((.((((((......(((.--...---------...-)))......))))))...)).......(((((((.(((((((...(....)..))))))))))))))....- ( -19.30)
>DroAna_CAF1 20267 95 + 1
GGCGCAAUCAGUAGC----AUC----------GGGCACCGUAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUGA
...((((((......----..(----------((...)))......))))))...........((((((((..(((((((.........))))))).)))))))).... ( -22.34)
>consensus
GCUGCAAUCAGCAACCGUU__CUC_________GAC_CCGAAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUG_
...((((((.....................................))))))...........(((((((...((((((...........))))))..))))))).... (-15.99 = -16.16 +   0.17) 

alignment

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secondary structure

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dotplot

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Window 8

Location 386,128 – 386,226
Length 98
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 85.26
Mean single sequence MFE -25.50
Consensus MFE -17.83
Energy contribution -17.58
Covariance contribution -0.25
Combinations/Pair 1.25
Mean z-score -2.88
Structure conservation index 0.70
SVM decision value 0.20
SVM RNA-class probability 0.630008
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 386128 98 + 22407834
UCCAUAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUGCUCCG-CGAUCGGAGCACAUAUGAACA
......((((...(((...........((((((((..(((((((.........))))))).))))))))..((((((-....)))))))))..)))).. ( -30.20)
>DroGri_CAF1 23461 85 + 1
-CCGACUUCAGAUUGUUAUGUUAAAAACUAAUUAAAUGGGCGUUUUCAAUAGUCACGCCCAUUAAUUGGUUGCUG--GUGCUCCUGCU-----------
-..(((........)))........((((((((((.(((((((...(....)..)))))))))))))))))((.(--(....)).)).----------- ( -23.20)
>DroSec_CAF1 1655 97 + 1
UCCAUAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUGCUCCG-CGAUCAGAGCACAUAUGAA-A
......((((...(((...........((((((((..(((((((.........))))))).))))))))..((((..-......)))))))..))))-. ( -25.30)
>DroSim_CAF1 1591 96 + 1
UCCAUAU-CAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUGCUCCG-CGAUCAGAGCACAUAUGAA-A
..(((((-...................((((((((..(((((((.........))))))).)))))))).(((((..-......))))).)))))..-. ( -24.60)
>DroEre_CAF1 5513 98 + 1
UCCGUAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUGCUUCG-GGAUCGGAGUACACAUGCACA
...((((((.((((.............((((((((..(((((((.........))))))).))))))))...(....-))))).))))))......... ( -27.60)
>DroYak_CAF1 1679 98 + 1
UCCGUAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUGCCUUG-UGUUCGAAGUACACAUGAACA
......((((.................((((((((..(((((((.........))))))).))))))))......((-(((.......))))))))).. ( -22.10)
>consensus
UCCAUAUUCAGAUUGUUAUGUUAAAAACUAAUUAAAGGGGCGUUUUCAAUAACAACGCCCAUUAAUUGGAUGCUCCG_CGAUCGGAGCACAUAUGAA_A
...........................((((((((..(((((((.........))))))).)))))))).(((((.........))))).......... (-17.83 = -17.58 +  -0.25) 

alignment

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secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:26:46 2006