Locus 2611

Sequence ID 2L_DroMel_CAF1
Location 7,220,626 – 7,220,721
Length 95
Max. P 0.927944
window4160 window4161

overview

Window 0

Location 7,220,626 – 7,220,721
Length 95
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 80.58
Mean single sequence MFE -24.53
Consensus MFE -18.86
Energy contribution -19.03
Covariance contribution 0.17
Combinations/Pair 1.16
Mean z-score -2.29
Structure conservation index 0.77
SVM decision value 1.19
SVM RNA-class probability 0.927944
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7220626 95 + 22407834
GAGUACCUGGAGUACUCCAUGGUGAAUUCACCCUUUCCCUGGGUACUCGAUCUGUAAAUAAAGAUGAGAUAU--AUUUAGAUACAAUUCAA--CGUUUC
(((((((((((....)))..((((....))))........))))))))((..((((..((((..........--.))))..))))..))..--...... ( -25.60)
>DroSec_CAF1 14579 97 + 1
GAGUAUCUGGAGUACUCCAUGGUGAAUUCACCCUUUCCCUGGGUACUCGAUCUGAAAAUAAAGAUGAGAUAA--AUUUAGAUACCUAUCAAACCAUAUU
..(((((((((((((.(((.((.(((........)))))))))))))).((((........)))).......--...)))))))............... ( -25.70)
>DroSim_CAF1 14827 97 + 1
GAGUAUCUGGAGUACUCCAUGGUGAAUUCACCCUUGCCCUGGGUACUCGAUCUGUAAAUAAAGAUGAGAUAA--AUUUAGAUACCCAUCAAACCAUUUC
(.(((((((((((((.(((.((..(........)..)).))))))))).((((........)))).......--...))))))).)............. ( -27.20)
>DroEre_CAF1 15181 95 + 1
GAGUACCUGGAGUACUCCAUGGUGAACUCACCCUUUCCCUGGGUACUCGAUCUAAAAAUAAAGAUAAGAUAU--AUUUUGAUACACAUGG--CCGUUUC
(((((((((((....)))..((((....))))........)))))))).((((........)))).......--................--....... ( -22.10)
>DroWil_CAF1 24296 92 + 1
GAGUACCGUGAAUAUUCCAUGGUGAAUUCACCUUUGCCCUGAGUGCUGGAUCUGAAA--GAGGAUUAGGGACAAU-AUAAAGAA-UAU-GU--UGUUUU
((((((((((.......))))))..)))).......((((((...((.........)--)....))))))(((((-(((.....-)))-))--)))... ( -21.20)
>DroYak_CAF1 15009 95 + 1
GAGUACCUGGAGUACUCCAUGGUGAAUUCACCUUUUCCCUGGGUACUCGAUCUGAAAAUAAAGAUAAGAUAU--AUUUAGAUACACAUGA--CCGAUAC
(((((((((((....)))..((((....))))........)))))))).(((((((.(((.........)))--.)))))))........--....... ( -25.40)
>consensus
GAGUACCUGGAGUACUCCAUGGUGAAUUCACCCUUUCCCUGGGUACUCGAUCUGAAAAUAAAGAUGAGAUAU__AUUUAGAUACACAUCAA_CCGUUUC
(((((((((((....)))..((((....))))........)))))))).((((........)))).................................. (-18.86 = -19.03 +   0.17)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,220,626 – 7,220,721
Length 95
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 80.58
Mean single sequence MFE -22.11
Consensus MFE -15.94
Energy contribution -16.63
Covariance contribution 0.70
Combinations/Pair 1.17
Mean z-score -1.42
Structure conservation index 0.72
SVM decision value 0.32
SVM RNA-class probability 0.688475
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7220626 95 - 22407834
GAAACG--UUGAAUUGUAUCUAAAU--AUAUCUCAUCUUUAUUUACAGAUCGAGUACCCAGGGAAAGGGUGAAUUCACCAUGGAGUACUCCAGGUACUC
......--..((.(((((..((((.--((.....)).))))..))))).))(((((((.........((((....)))).((((....))))))))))) ( -24.40)
>DroSec_CAF1 14579 97 - 1
AAUAUGGUUUGAUAGGUAUCUAAAU--UUAUCUCAUCUUUAUUUUCAGAUCGAGUACCCAGGGAAAGGGUGAAUUCACCAUGGAGUACUCCAGAUACUC
..............(((((((....--.......((((........)))).(((((((((.......((((....)))).))).)))))).))))))). ( -23.50)
>DroSim_CAF1 14827 97 - 1
GAAAUGGUUUGAUGGGUAUCUAAAU--UUAUCUCAUCUUUAUUUACAGAUCGAGUACCCAGGGCAAGGGUGAAUUCACCAUGGAGUACUCCAGAUACUC
.............((((((((....--.......((((........)))).(((((((((.......((((....)))).))).)))))).)))))))) ( -25.10)
>DroEre_CAF1 15181 95 - 1
GAAACGG--CCAUGUGUAUCAAAAU--AUAUCUUAUCUUUAUUUUUAGAUCGAGUACCCAGGGAAAGGGUGAGUUCACCAUGGAGUACUCCAGGUACUC
.......--......(((((.....--.......((((........)))).(((((((((.......((((....)))).))).))))))..))))).. ( -22.00)
>DroWil_CAF1 24296 92 - 1
AAAACA--AC-AUA-UUCUUUAU-AUUGUCCCUAAUCCUC--UUUCAGAUCCAGCACUCAGGGCAAAGGUGAAUUCACCAUGGAAUAUUCACGGUACUC
......--..-(((-((((....-.(((.((((.......--.................))))))).((((....))))..)))))))........... ( -14.76)
>DroYak_CAF1 15009 95 - 1
GUAUCGG--UCAUGUGUAUCUAAAU--AUAUCUUAUCUUUAUUUUCAGAUCGAGUACCCAGGGAAAAGGUGAAUUCACCAUGGAGUACUCCAGGUACUC
(((((((--((((((((......))--))))..((....))......))))(((((((((.......((((....)))).))).))))))..))))).. ( -22.90)
>consensus
GAAACGG_UUGAUGUGUAUCUAAAU__AUAUCUCAUCUUUAUUUUCAGAUCGAGUACCCAGGGAAAGGGUGAAUUCACCAUGGAGUACUCCAGGUACUC
...............((((((.............((((........)))).(((((((((.......((((....)))).))).)))))).)))))).. (-15.94 = -16.63 +   0.70)

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 10:31:53 2006