Locus 3149

Sequence ID 3L_DroMel_CAF1
Location 9,163,363 – 9,163,493
Length 130
Max. P 0.952353
window4911 window4912

overview

Window 1

Location 9,163,363 – 9,163,453
Length 90
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 79.53
Mean single sequence MFE -13.69
Consensus MFE -8.40
Energy contribution -8.90
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.44
Structure conservation index 0.61
SVM decision value 1.24
SVM RNA-class probability 0.934401
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9163363 90 - 23771897
CAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUUACCCAC-CACCGUAGCCAG--CACAACACACAGAC------AGGAAUAAAGAAAA
.........(((..(((((((((((((....)))))))))))))....((-....))....))--).............------.............. ( -10.60)
>DroSec_CAF1 18475 90 - 1
CAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUUACCCAC-CACCGUAGCCAG--CACAACACACAGAC------AGGAAUAAAGAAAA
.........(((..(((((((((((((....)))))))))))))....((-....))....))--).............------.............. ( -10.60)
>DroSim_CAF1 18648 90 - 1
CAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUAACCCAC-CACCAUAGCCAG--CACAACACACAGAC------AGGAAUAAAGAAAA
...............((((((((((((....)))))))))))).......-............--..............------.............. (  -9.00)
>DroEre_CAF1 30936 75 - 1
CAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUUACCCC---AC-------------CAA--CGUAGAC------GGGUACAAGGAAAA
....((........(((((((((((((....)))))))))))))((((.---..-------------...--.......------)))).....))... ( -13.32)
>DroYak_CAF1 32473 89 - 1
CAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGCCACCACC-CAC---AGCGAACACACAACCCACAGAC------AGGAAUAAAGAAAA
....((..........(((((((((((....)))))))))))........-...---..............((......------.))......))... (  -7.80)
>DroAna_CAF1 19538 97 - 1
CAAAUCGGAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUUACCCGGCCCACGCCCCCCU--CCCAACUUGGAGAUGGGGCCGGAAAAAAGGAAAA
....((((.(((..(((((((((((((....)))))))))))))....)))))..(((((.((--((......))))..)))))..))........... ( -30.80)
>consensus
CAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUUACCCAC_CACCGUAGCCAG__CACAACACACAGAC______AGGAAUAAAGAAAA
..............(((((((((((((....)))))))))))))....................................................... ( -8.40 =  -8.90 +   0.50)

alignment

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secondary structure

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dotplot

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Window 2

Location 9,163,391 – 9,163,493
Length 102
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 82.48
Mean single sequence MFE -21.71
Consensus MFE -17.67
Energy contribution -17.75
Covariance contribution 0.08
Combinations/Pair 1.12
Mean z-score -3.11
Structure conservation index 0.81
SVM decision value 1.42
SVM RNA-class probability 0.952353
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9163391 102 - 23771897
AGACCGCAUUAGACUAAUUGAACUGCGGUCGACUCAAUCGCAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUUACCCAC-CACCGUAGCCAG--
.(((((((...............))))))).........((........))...(((((((((((((....)))))))))))))......-............-- ( -21.76)
>DroSim_CAF1 18676 102 - 1
AGACCGCAUUAGACUAAUUGAACUGCGGUCGACUCAAUCGCAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUAACCCAC-CACCAUAGCCAG--
.(((((((...............))))))).........((........))....((((((((((((....)))))))))))).......-............-- ( -20.86)
>DroEre_CAF1 30960 91 - 1
AAACCGCAUUAGGCUAAUUGAACUGCGGUCGACUCAAUCGCAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUUACCCC---AC-----------
...........((((..((((..((((((.......))))))..))))))))..(((((((((((((....))))))))))))).....---..----------- ( -21.50)
>DroWil_CAF1 25336 92 - 1
-CGUCGCAUUAAACUAAUUGAAAUGCGGUUCAACAAAUUGCAAAUCAAAGCUCGAACAUUUUGAUUUUAAUAAAUUAAAAUGUGGCCAAC-AAG-----------
-.(((............((((..(((((((.....)))))))..)))).......((((((((((((....)))))))))))))))....-...----------- ( -18.70)
>DroYak_CAF1 32501 101 - 1
AGACCGCAUUAGACUAAUUGAACUGCGGUCGACUCAAUCGCAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGCCACCACC-CAC---AGCGAACA
.(((((((...............))))))).......((((...............(((((((((((....)))))))))))........-...---.))))... ( -21.09)
>DroAna_CAF1 19572 103 - 1
AGACCGCAUUAGACUAAUUGAACUGCGGUCGACUCAAUCGCAAAUCGGAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUUACCCGGCCCACGCCCCCCU--
.(((((((...............)))))))................((.(((..(((((((((((((....)))))))))))))....)))))..........-- ( -26.36)
>consensus
AGACCGCAUUAGACUAAUUGAACUGCGGUCGACUCAAUCGCAAAUCAAAGCUCAAACAUUUUGAUUUUAAUAAAUUAAAAUGUUACCCAC_CAC___AGCCA___
.(((((((((((.....))))..))))))).........((........))....((((((((((((....))))))))))))...................... (-17.67 = -17.75 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:46 2006