Locus 5977

Sequence ID 2R_DroMel_CAF1
Location 18,809,621 – 18,809,732
Length 111
Max. P 0.972531
window9588 window9589

overview

Window 8

Location 18,809,621 – 18,809,732
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 97.66
Mean single sequence MFE -25.20
Consensus MFE -21.44
Energy contribution -21.40
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -1.59
Structure conservation index 0.85
SVM decision value 0.35
SVM RNA-class probability 0.699997
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18809621 111 + 20766785
CUCUGGUUCUGAUUUACCCCACUUUUUGUUUGUUGCCAGCAAAAUGUUUUCACACCAACUUGGCCCGGAGAAGAUUUUUUCUGGGCAUUUAGCUCGCUUGUGUGAUUUAUU
..(((((...(((..............)))....)))))...((((...((((((.......((((((((((....))))))))))....((....)).))))))..)))) ( -25.44)
>DroSec_CAF1 1526 111 + 1
CUCUGGUUCUGAUUUACCCCACUUUUUGUUUGUUGAGAGCAAAAUGUUUUCACACCAACUUGGCCCGGAGAAGAUUUUUUCUGGGCAUUUAGCUUGCUUUUGUGAUUUAUU
....(((........))).(((.....((..(((((((((.....))))))...........((((((((((....))))))))))....)))..))....)))....... ( -26.70)
>DroSim_CAF1 1565 111 + 1
CUCUGGUUCUGAUUUACCCCACUUUUUGUUUGUUGCCAGCAAAAUGUUUUCACACCAACUUGGCCCGGAGAAGAUUUUUUCUGGGCAUUUAGCUUGCUUUUGUGAUUUAUU
..(((((...(((..............)))....)))))...((((...(((((.(((((..((((((((((....))))))))))....)).)))....)))))..)))) ( -24.24)
>DroEre_CAF1 226 111 + 1
CUCUGGUUCUGAUUUACCCCACUUUUUGUUUGUUGCCAGCAAAAUGUUUUCACACCAACUUGGCCCGGAGAAGAUUUUUUCUGGCCAUUUAGCUCGCUUUUGUGAUUUAUU
....(((........))).........(((.((.(((((.(((((.(((((...((.....))....))))).)))))..))))).))..)))((((....))))...... ( -21.50)
>DroYak_CAF1 227 111 + 1
CUCUGGUUGUGAUUUACCCCACUUUUUGUUUGUUGCCAGCAAAAUGUUUUCACACCAACUUGGCCCGGAGAAGAUUUUUUCUGGGCAUUUAGCUCGCUUUUGUGAUUUAUU
...((((.((((...((......(((((((.......))))))).))..)))))))).....((((((((((....))))))))))...(((.((((....)))).))).. ( -28.10)
>consensus
CUCUGGUUCUGAUUUACCCCACUUUUUGUUUGUUGCCAGCAAAAUGUUUUCACACCAACUUGGCCCGGAGAAGAUUUUUUCUGGGCAUUUAGCUCGCUUUUGUGAUUUAUU
...((((..(((...((......(((((((.......))))))).))..))).)))).....((((((((((....))))))))))...(((.((((....)))).))).. (-21.44 = -21.40 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,809,621 – 18,809,732
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 97.66
Mean single sequence MFE -23.70
Consensus MFE -21.28
Energy contribution -21.44
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -1.84
Structure conservation index 0.90
SVM decision value 1.69
SVM RNA-class probability 0.972531
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18809621 111 - 20766785
AAUAAAUCACACAAGCGAGCUAAAUGCCCAGAAAAAAUCUUCUCCGGGCCAAGUUGGUGUGAAAACAUUUUGCUGGCAACAAACAAAAAGUGGGGUAAAUCAGAACCAGAG
......((((...((((((((((..((((((((......))))..))))....)))))((....))...)))))(....).........))))(((........))).... ( -24.20)
>DroSec_CAF1 1526 111 - 1
AAUAAAUCACAAAAGCAAGCUAAAUGCCCAGAAAAAAUCUUCUCCGGGCCAAGUUGGUGUGAAAACAUUUUGCUCUCAACAAACAAAAAGUGGGGUAAAUCAGAACCAGAG
......((((...............((((((((......))))..))))...(((((.(..((.....))..).).)))).........))))(((........))).... ( -20.20)
>DroSim_CAF1 1565 111 - 1
AAUAAAUCACAAAAGCAAGCUAAAUGCCCAGAAAAAAUCUUCUCCGGGCCAAGUUGGUGUGAAAACAUUUUGCUGGCAACAAACAAAAAGUGGGGUAAAUCAGAACCAGAG
......((((...((((((((((..((((((((......))))..))))....)))))((....))...)))))(....).........))))(((........))).... ( -24.50)
>DroEre_CAF1 226 111 - 1
AAUAAAUCACAAAAGCGAGCUAAAUGGCCAGAAAAAAUCUUCUCCGGGCCAAGUUGGUGUGAAAACAUUUUGCUGGCAACAAACAAAAAGUGGGGUAAAUCAGAACCAGAG
......((((...((((((((((.(((((((((......))))...)))))..)))))((....))...)))))(....).........))))(((........))).... ( -25.40)
>DroYak_CAF1 227 111 - 1
AAUAAAUCACAAAAGCGAGCUAAAUGCCCAGAAAAAAUCUUCUCCGGGCCAAGUUGGUGUGAAAACAUUUUGCUGGCAACAAACAAAAAGUGGGGUAAAUCACAACCAGAG
......((((...((((((((((..((((((((......))))..))))....)))))((....))...)))))(....).........))))(((........))).... ( -24.20)
>consensus
AAUAAAUCACAAAAGCGAGCUAAAUGCCCAGAAAAAAUCUUCUCCGGGCCAAGUUGGUGUGAAAACAUUUUGCUGGCAACAAACAAAAAGUGGGGUAAAUCAGAACCAGAG
......((((...((((((((((..((((((((......))))..))))....)))))((....))...)))))(....).........))))(((........))).... (-21.28 = -21.44 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:30 2006