Locus 6882

Sequence ID 3L_DroMel_CAF1
Location 18,552,647 – 18,552,807
Length 160
Max. P 0.968415
window11159 window11160

overview

Window 9

Location 18,552,647 – 18,552,767
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.75
Mean single sequence MFE -22.52
Consensus MFE -18.44
Energy contribution -18.64
Covariance contribution 0.20
Combinations/Pair 1.12
Mean z-score -1.33
Structure conservation index 0.82
SVM decision value 0.00
SVM RNA-class probability 0.534653
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18552647 120 - 23771897
UAUCACUGAGUAAAUGGCAAUUAGUUUUCUUUGAAACUAAUUUGUUUUUAAUGCUCUUCUACUACUGGAUUGCAUUUAAUGAAAAUUGGACUCCAGGGAAUUCAGAAAACAACAAUUUUA
.....((((((...(((...(((((((((...(((((......))))).(((((...((((....))))..)))))....)))))))))...)))....))))))............... ( -22.60)
>DroSec_CAF1 176665 120 - 1
UAUCACUGAGUAAAUACCAAUUAGUUUUCUUUGAAACUAAUUUGUUUUCAAUGCUCUUCUACUACUGGUUUGCAUUUAAUGAAAAUUGGACUCCAGGGAAUUCAGAAAACAACAAUUUUA
.....((((((.....((((((((((((....)))))))))..(((((((((((....(((....)))...))))....))))))))))..((....))))))))............... ( -20.90)
>DroSim_CAF1 165134 120 - 1
UAUCACUGAGUAAAUACCAAUUAGUUUUCUUUGAAACUAAUUUGUUUUCAAUGCUCUUCUACUACUGGAUUGCAUUUAAUGAAAACUGGACUCCAGGGAAUUCAGAAAACAAGAAUUUUA
.....((((((.....((((((((((((....)))))))))).(((((((((((...((((....))))..))))....))))))).))..((....))))))))............... ( -25.20)
>DroEre_CAF1 172962 120 - 1
UAUCACAAAACAAUUGCCAAUUAGUUUCGUUUGGAACUAAUUUGUUUUUAAUGCUCUUUUACUGCCGGAUUGCAUUUAAUGGAAAUUGCACUCCAUGGAAUUCAGUAAACAACCAUUUUA
...........((..((.((((((((((....)))))))))).))..))((((....((((((((((((.((((.((......)).)))).)))..))....)))))))....))))... ( -23.40)
>DroYak_CAF1 178626 120 - 1
UAUCACUAAAUAAAUGGCAAUUAGUUUUUUUUGAAACUAAUUUGUUUUCUAUGCUCUUUUACUACUGGAUUGCAUUUAAUGAAAAUUGGACUCCGGGGAAUUCAGAAAACAACAAUUUUA
..................((((((((((....))))))))))((((((((..............(((((.....((((((....)))))).))))).(....)))))))))......... ( -20.50)
>consensus
UAUCACUGAGUAAAUGCCAAUUAGUUUUCUUUGAAACUAAUUUGUUUUCAAUGCUCUUCUACUACUGGAUUGCAUUUAAUGAAAAUUGGACUCCAGGGAAUUCAGAAAACAACAAUUUUA
..................((((((((((....))))))))))((((((((((((...((((....))))..)))))..........((((.((....)).)))))))))))......... (-18.44 = -18.64 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 18,552,687 – 18,552,807
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 77.63
Mean single sequence MFE -19.40
Consensus MFE -14.73
Energy contribution -15.22
Covariance contribution 0.50
Combinations/Pair 1.18
Mean z-score -2.04
Structure conservation index 0.76
SVM decision value 1.63
SVM RNA-class probability 0.968415
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18552687 120 - 23771897
UCAGAUCUCUUUUUUAGUUAAUGUAGUUAUUUUGCUCAAAUAUCACUGAGUAAAUGGCAAUUAGUUUUCUUUGAAACUAAUUUGUUUUUAAUGCUCUUCUACUACUGGAUUGCAUUUAAU
.........................(((((((.(((((........))))))))))))((((((((((....)))))))))).......(((((...((((....))))..))))).... ( -21.70)
>DroSec_CAF1 176705 98 - 1
----------------------AUAGUUAUUUUGCUCAAAUAUCACUGAGUAAAUACCAAUUAGUUUUCUUUGAAACUAAUUUGUUUUCAAUGCUCUUCUACUACUGGUUUGCAUUUAAU
----------------------........((((((((........)))))))).((.((((((((((....)))))))))).))....(((((....(((....)))...))))).... ( -17.80)
>DroSim_CAF1 165174 98 - 1
----------------------AUAGUUAUUUUGCUCAAAUAUCACUGAGUAAAUACCAAUUAGUUUUCUUUGAAACUAAUUUGUUUUCAAUGCUCUUCUACUACUGGAUUGCAUUUAAU
----------------------........((((((((........)))))))).((.((((((((((....)))))))))).))....(((((...((((....))))..))))).... ( -19.90)
>DroEre_CAF1 173002 109 - 1
-------CCUUUUAAGGCUAGUGUAU----UUUGCUCAAAUAUCACAAAACAAUUGCCAAUUAGUUUCGUUUGGAACUAAUUUGUUUUUAAUGCUCUUUUACUGCCGGAUUGCAUUUAAU
-------........(((..((((((----((.....))))).))).....((..((.((((((((((....)))))))))).))..))..............))).............. ( -18.20)
>consensus
______________________AUAGUUAUUUUGCUCAAAUAUCACUGAGUAAAUACCAAUUAGUUUUCUUUGAAACUAAUUUGUUUUCAAUGCUCUUCUACUACUGGAUUGCAUUUAAU
..............................((((((((........)))))))).((.((((((((((....)))))))))).))....(((((...(((......)))..))))).... (-14.73 = -15.22 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:05 2006