Locus 2116

Sequence ID 2L_DroMel_CAF1
Location 5,700,843 – 5,700,935
Length 92
Max. P 0.924498
window3415 window3416

overview

Window 5

Location 5,700,843 – 5,700,935
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 93.84
Mean single sequence MFE -20.59
Consensus MFE -17.69
Energy contribution -17.50
Covariance contribution -0.19
Combinations/Pair 1.20
Mean z-score -1.50
Structure conservation index 0.86
SVM decision value 0.15
SVM RNA-class probability 0.605383
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5700843 92 + 22407834
CCGUUUCCUUGUUCUGGUUUUUAUGCCACUUUAACGUUUCCUAAUGUACGUGGCGCAUUACGCGGCCACAAAAAUAACAAUAAGCCGGAAAC
...........(((((((((...((........(((((....)))))..(((((((.....)).)))))........))..))))))))).. ( -22.50)
>DroSec_CAF1 146174 92 + 1
CCGUUUCCUUGUUCUGGUUUUUAUGCCACUUUAACGUUUCCUAAUGUACGUGGCACAUUACGCGGCCACAAAAAUAACAAUAAGCCGGAAAC
..((((((...............((((((....(((((....)))))..))))))........(((.................))))))))) ( -20.33)
>DroSim_CAF1 145678 92 + 1
CCGUUUCCUUGUUCUGGUUUUUAUGCCACUUUAACGUUUCCUAAUGUACGUGGCACAUUACGCGGCCACAAAAAUAACAAUAAGCCGGAAAC
..((((((...............((((((....(((((....)))))..))))))........(((.................))))))))) ( -20.33)
>DroEre_CAF1 148993 92 + 1
CCGUUUCCUUGUUCUGGGUUUUAUGCCACUUUAACGUUUCCUAAUGUACGUGGCACAUUACGCGGCCACAAAAAUAACAAUAAGCCGGAAAC
..((((((.......(.((..(.((((((....(((((....)))))..)))))).)..)).)(((.................))))))))) ( -23.13)
>DroYak_CAF1 147966 92 + 1
CCGUUUCCUUGUUCUGGUUUUUAUGCCACUUUAACGUUUCCUAAUGUACGUGGCACAUUACGCGGCCACAAAAAUAACAAUAAGCCGGAAAC
..((((((...............((((((....(((((....)))))..))))))........(((.................))))))))) ( -20.33)
>DroAna_CAF1 141957 91 + 1
CUGUUUCCUUGCUGCGGUUUUUAUAUCAUUUUAACAUUUCCUAAUGUAUGUGGCACAUUACGCGGCCACAA-AAUAACAAUAUGAAGGAGCC
.............((..(((((((((.......(((((....))))).((((((.(.......))))))).-.......))))))))).)). ( -16.90)
>consensus
CCGUUUCCUUGUUCUGGUUUUUAUGCCACUUUAACGUUUCCUAAUGUACGUGGCACAUUACGCGGCCACAAAAAUAACAAUAAGCCGGAAAC
..((((((.......(((......)))......(((((....)))))..(((((.(.......)))))).................)))))) (-17.69 = -17.50 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 6

Location 5,700,843 – 5,700,935
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 93.84
Mean single sequence MFE -26.24
Consensus MFE -22.42
Energy contribution -23.33
Covariance contribution 0.92
Combinations/Pair 1.09
Mean z-score -2.14
Structure conservation index 0.85
SVM decision value 1.16
SVM RNA-class probability 0.924498
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5700843 92 - 22407834
GUUUCCGGCUUAUUGUUAUUUUUGUGGCCGCGUAAUGCGCCACGUACAUUAGGAAACGUUAAAGUGGCAUAAAAACCAGAACAAGGAAACGG
((((((......(((((.((((((((.((((.(((((..(...)..)))))(....)......))))))))))))....))))))))))).. ( -25.00)
>DroSec_CAF1 146174 92 - 1
GUUUCCGGCUUAUUGUUAUUUUUGUGGCCGCGUAAUGUGCCACGUACAUUAGGAAACGUUAAAGUGGCAUAAAAACCAGAACAAGGAAACGG
((((((......(((((.((((((((.((((.((((((((...))))))))(....)......))))))))))))....))))))))))).. ( -28.80)
>DroSim_CAF1 145678 92 - 1
GUUUCCGGCUUAUUGUUAUUUUUGUGGCCGCGUAAUGUGCCACGUACAUUAGGAAACGUUAAAGUGGCAUAAAAACCAGAACAAGGAAACGG
((((((......(((((.((((((((.((((.((((((((...))))))))(....)......))))))))))))....))))))))))).. ( -28.80)
>DroEre_CAF1 148993 92 - 1
GUUUCCGGCUUAUUGUUAUUUUUGUGGCCGCGUAAUGUGCCACGUACAUUAGGAAACGUUAAAGUGGCAUAAAACCCAGAACAAGGAAACGG
((((((((((...............))))(.((..((((((((........(....)......))))))))..)).).......)))))).. ( -27.90)
>DroYak_CAF1 147966 92 - 1
GUUUCCGGCUUAUUGUUAUUUUUGUGGCCGCGUAAUGUGCCACGUACAUUAGGAAACGUUAAAGUGGCAUAAAAACCAGAACAAGGAAACGG
((((((......(((((.((((((((.((((.((((((((...))))))))(....)......))))))))))))....))))))))))).. ( -28.80)
>DroAna_CAF1 141957 91 - 1
GGCUCCUUCAUAUUGUUAUU-UUGUGGCCGCGUAAUGUGCCACAUACAUUAGGAAAUGUUAAAAUGAUAUAAAAACCGCAGCAAGGAAACAG
.(((.........(((((((-(((((((.((.....)))))))..(((((....))))).)))))))))..........)))..(....).. ( -18.11)
>consensus
GUUUCCGGCUUAUUGUUAUUUUUGUGGCCGCGUAAUGUGCCACGUACAUUAGGAAACGUUAAAGUGGCAUAAAAACCAGAACAAGGAAACGG
((((((......(((((.((((((((.((((.((((((((...))))))))(....)......))))))))))))....))))))))))).. (-22.42 = -23.33 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:58 2006