Locus 181

Sequence ID 4_DroMel_CAF1
Location 1,106,838 – 1,106,984
Length 146
Max. P 0.909450
window292 window293

overview

Window 2

Location 1,106,838 – 1,106,944
Length 106
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 86.93
Mean single sequence MFE -26.40
Consensus MFE -26.39
Energy contribution -26.32
Covariance contribution -0.06
Combinations/Pair 1.12
Mean z-score -1.48
Structure conservation index 1.00
SVM decision value 0.95
SVM RNA-class probability 0.888378
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1106838 106 - 1281640
UGCAAGCCAACCGAGACAGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUGCU------AGGUACUGGAAAUGCUACUGCUGUAUAUAUUAUGUUAUGUACUAUU--------UAUUU
.(((((((((..(((((.((......)).)))))..)))))).....((((..((------((...))))....)))).))).(((((((......)))))))....--------..... ( -26.30)
>DroSec_CAF1 19682 112 - 1
UGCAAGCCAACCGAGACUGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUGCUAACUCUAGGUACUGAAAAUGCCACUGCUGUAUAUAUUAUGUUUUGUGCUAUA--------UAUUU
.(((((((((..(((((.((......)).)))))..))))))(((((..(.((((.......)))))..))))).....))).(((((((.(((.....))).))))--------))).. ( -25.80)
>DroEre_CAF1 19996 120 - 1
UGCAAGCCAACCGAGACAGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUACUAGCUCUAGGUACUGGAAAUGCCAUUGCUGUAUUUAUUAUGUUAUAUACUGUAACUAUCUUUGUUA
.((.((((((..(((((.((......)).)))))..))))))(((((..(.((((.......)))))..)))))))..((((.((((.((......)).)))).))))............ ( -26.30)
>DroYak_CAF1 11022 112 - 1
UGCAAGCCAACCGAGACAGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUGCUAGCUCUAGGUACUGGAAAUGCCAUUGCUGUAUCUAUUAUGUUAUAUACUGCA--------UAUUU
.((.((((((..(((((.((......)).)))))..))))))(((((..(.((((.......)))))..)))))))...(((.((((.((......)).)))).)))--------..... ( -27.20)
>consensus
UGCAAGCCAACCGAGACAGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUGCUAGCUCUAGGUACUGGAAAUGCCACUGCUGUAUAUAUUAUGUUAUAUACUAUA________UAUUU
.(((((((((..(((((.((......)).)))))..))))))(((((..(.((((.......)))))..))))).....))).(((((((......)))))))................. (-26.39 = -26.32 +  -0.06) 

alignment

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secondary structure

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dotplot

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Window 3

Location 1,106,870 – 1,106,984
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -36.08
Consensus MFE -33.38
Energy contribution -33.25
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -1.94
Structure conservation index 0.93
SVM decision value 1.06
SVM RNA-class probability 0.909450
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1106870 114 - 1281640
AAUUCGGUAUUUCAAUCGUGGCUCGUGGCUUUUCACGGUCUGCAAGCCAACCGAGACAGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUGCU------AGGUACUGGAAAUGCUACU
.....((((((((...(.((((.(((((....)))))(((.((((.((((..(((((.((......)).)))))..))))))))....))).)))------).).....))))))))... ( -34.70)
>DroSec_CAF1 19714 120 - 1
AAUUCGGUAUUUCAAUCGUGGCUCGUGGCUUUUCACGGUCUGCAAGCCAACCGAGACUGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUGCUAACUCUAGGUACUGAAAAUGCCACU
....((((......))))......((((((((((((((((.((((.((((..(((((.((......)).)))))..))))))))....)))))(((....)))....)))))).))))). ( -34.10)
>DroEre_CAF1 20036 120 - 1
AAUUCGGUAUUUCAAUCGUGGCUCGUGGCUUUUCACGGUCUGCAAGCCAACCGAGACAGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUACUAGCUCUAGGUACUGGAAAUGCCAUU
.....((((((((.(((..((((.((((((....((.(....).((((((..(((((.((......)).)))))..))))))))....)))))).))))...)))....))))))))... ( -37.70)
>DroYak_CAF1 11054 120 - 1
AAUUCGGUAUUUCAAUCGUGGCUCGUGGCUUUUCACGGUCUGCAAGCCAACCGAGACAGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUGCUAGCUCUAGGUACUGGAAAUGCCAUU
.....((((((((....(((.((.(.((((.....(((((.((((.((((..(((((.((......)).)))))..))))))))....)))))..))))).)).)))..))))))))... ( -37.80)
>consensus
AAUUCGGUAUUUCAAUCGUGGCUCGUGGCUUUUCACGGUCUGCAAGCCAACCGAGACAGCUUUUCCGCCGUUUCUUUUGGUUGUUUUUGGCUGCUAGCUCUAGGUACUGGAAAUGCCACU
.....((((((((....(..(..(((((....)))))..)..).((((((..(((((.((......)).)))))..))))))......((.((((.......)))))).))))))))... (-33.38 = -33.25 +  -0.12) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:29 2006