Locus 4618

Sequence ID 2L_DroMel_CAF1
Location 13,211,967 – 13,212,080
Length 113
Max. P 0.929325
window7292 window7293

overview

Window 2

Location 13,211,967 – 13,212,080
Length 113
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 99.56
Mean single sequence MFE -42.98
Consensus MFE -42.12
Energy contribution -42.38
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -5.31
Structure conservation index 0.98
SVM decision value 0.21
SVM RNA-class probability 0.636332
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13211967 113 + 22407834
GCGACAGAGGUGGAGCAAGCCCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUAC
((.....(((.((......))))).)).....(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..)))))))).. ( -41.40)
>DroSec_CAF1 18768 113 + 1
GCGACAGAGGUGGAGCAAGCUCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUAC
......(((((((((....))))..)).))).(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..)))))))).. ( -43.50)
>DroSim_CAF1 18828 113 + 1
GCGACAGAGGUGGAGCAAGCUCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUAC
......(((((((((....))))..)).))).(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..)))))))).. ( -43.50)
>DroEre_CAF1 23257 113 + 1
GCGACAGAGGUGGAGCAAGCUCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUAC
......(((((((((....))))..)).))).(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..)))))))).. ( -43.50)
>consensus
GCGACAGAGGUGGAGCAAGCUCCUAGCACUCCGUCUGAUUCCAAAAAUCAGUUUAACAUUUGUUGUCCUCCAAUGGAGGAACUAUCAGAUGUUAAGCUGAUAAGAACAGAUAC
......(((((((((....))))..)).))).(((((.(((.....((((((((((((((((...((((((...)))))).....))))))))))))))))..)))))))).. (-42.12 = -42.38 +   0.25)

alignment

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secondary structure

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dotplot

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Window 3

Location 13,211,967 – 13,212,080
Length 113
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 99.56
Mean single sequence MFE -38.38
Consensus MFE -38.56
Energy contribution -38.38
Covariance contribution -0.19
Combinations/Pair 1.03
Mean z-score -3.76
Structure conservation index 1.00
SVM decision value 1.20
SVM RNA-class probability 0.929325
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13211967 113 - 22407834
GUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGGGCUUGCUCCACCUCUGUCGC
......(((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))))..(((((((.(...((((....)))).)))))))).. ( -37.70)
>DroSec_CAF1 18768 113 - 1
GUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGAGCUUGCUCCACCUCUGUCGC
......(((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))))..(((((((.(...((((....)))).)))))))).. ( -38.60)
>DroSim_CAF1 18828 113 - 1
GUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGAGCUUGCUCCACCUCUGUCGC
......(((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))))..(((((((.(...((((....)))).)))))))).. ( -38.60)
>DroEre_CAF1 23257 113 - 1
GUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGAGCUUGCUCCACCUCUGUCGC
......(((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))))..(((((((.(...((((....)))).)))))))).. ( -38.60)
>consensus
GUAUCUGUUCUUAUCAGCUUAACAUCUGAUAGUUCCUCCAUUGGAGGACAACAAAUGUUAAACUGAUUUUUGGAAUCAGACGGAGUGCUAGGAGCUUGCUCCACCUCUGUCGC
......(((((.(((((.(((((((.((...((.(((((...)))))))..)).))))))).)))))....)))))..(((((((.(...((((....)))).)))))))).. (-38.56 = -38.38 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:44 2006