Locus 4753

Sequence ID	2R_DroMel_CAF1
Location	15,632,046 – 15,632,137
Length	91
Max. P	0.752700

overview

Window 7

Location	15,632,046 – 15,632,137
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	97.36
Mean single sequence MFE	-13.24
Consensus MFE	-11.30
Energy contribution	-11.30
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.60
Structure conservation index	0.85
SVM decision value	0.48
SVM RNA-class probability	0.752700
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15632046 91 + 20766785
CCCAAACGCAUAACUGAAUUGCGAAAACCAACUAAACAAAAGCUAUGCGCAAGUUAAUUGCUUGUAAAUAAUUGUACAUAAAUAAAUUAAU
......((((.........))))............((((..((...))((((((.....))))))......))))................ ( -11.30)
>DroSec_CAF1 509520 91 + 1
CCCAAACGCAUAACUGAAUUGCGAAAACCAACUAAACAAAAGCUAUGCGCAAGUUAAUUGCUUGUAAAUAAUUGUACAUAAAUAAAUUAAU
......((((.........))))............((((..((...))((((((.....))))))......))))................ ( -11.30)
>DroSim_CAF1 406137 91 + 1
CCCAAACGCAUAACUGAAUUGCGAAAACCAACUAAACAAAAGCUAUGCGCAAGUUAAUUGCUUGUAAAUAAUUGUACAUAAAUAAAUUAAU
......((((.........))))............((((..((...))((((((.....))))))......))))................ ( -11.30)
>DroEre_CAF1 410581 91 + 1
CGCAAACGCAUAGCUGAAUUGCGAACACUAACUAAACAAAAGCUAUGCGCAAGUUAAUUGCUUGUAAAUAAUUGUACAUAAAUAAAUUAAU
.((((..((((((((...(((...............))).))))))))((((((.....))))))......))))................ ( -19.46)
>DroYak_CAF1 427523 91 + 1
CGCAAACGCAUAACUGAAUUGCGAAAACUAACUAAACAAAAGCUAUGCGCAAGUUAAUUGCUUGUAAAUAAUUGUAGAUAAAUAAAUUAAU
.((((..(((((.((...(((...............))).)).)))))((((((.....))))))......))))................ ( -12.86)
>consensus
CCCAAACGCAUAACUGAAUUGCGAAAACCAACUAAACAAAAGCUAUGCGCAAGUUAAUUGCUUGUAAAUAAUUGUACAUAAAUAAAUUAAU
......((((.........))))............((((..((...))((((((.....))))))......))))................ (-11.30 = -11.30 +  -0.00)

alignment

secondary structure

dotplot

Window 8

Location	15,632,046 – 15,632,137
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	97.36
Mean single sequence MFE	-17.23
Consensus MFE	-15.54
Energy contribution	-15.58
Covariance contribution	0.04
Combinations/Pair	1.06
Mean z-score	-1.36
Structure conservation index	0.90
SVM decision value	0.43
SVM RNA-class probability	0.732691
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15632046 91 - 20766785
AUUAAUUUAUUUAUGUACAAUUAUUUACAAGCAAUUAACUUGCGCAUAGCUUUUGUUUAGUUGGUUUUCGCAAUUCAGUUAUGCGUUUGGG
.............((((........)))).........(..((((((((((.((((..((.....))..))))...))))))))))..).. ( -16.60)
>DroSec_CAF1 509520 91 - 1
AUUAAUUUAUUUAUGUACAAUUAUUUACAAGCAAUUAACUUGCGCAUAGCUUUUGUUUAGUUGGUUUUCGCAAUUCAGUUAUGCGUUUGGG
.............((((........)))).........(..((((((((((.((((..((.....))..))))...))))))))))..).. ( -16.60)
>DroSim_CAF1 406137 91 - 1
AUUAAUUUAUUUAUGUACAAUUAUUUACAAGCAAUUAACUUGCGCAUAGCUUUUGUUUAGUUGGUUUUCGCAAUUCAGUUAUGCGUUUGGG
.............((((........)))).........(..((((((((((.((((..((.....))..))))...))))))))))..).. ( -16.60)
>DroEre_CAF1 410581 91 - 1
AUUAAUUUAUUUAUGUACAAUUAUUUACAAGCAAUUAACUUGCGCAUAGCUUUUGUUUAGUUAGUGUUCGCAAUUCAGCUAUGCGUUUGCG
.............((((........)))).((((.......((((((((((.((((.............))))...)))))))))))))). ( -19.33)
>DroYak_CAF1 427523 91 - 1
AUUAAUUUAUUUAUCUACAAUUAUUUACAAGCAAUUAACUUGCGCAUAGCUUUUGUUUAGUUAGUUUUCGCAAUUCAGUUAUGCGUUUGCG
..............................((((.......((((((((((.((((..((.....))..))))...)))))))))))))). ( -17.01)
>consensus
AUUAAUUUAUUUAUGUACAAUUAUUUACAAGCAAUUAACUUGCGCAUAGCUUUUGUUUAGUUGGUUUUCGCAAUUCAGUUAUGCGUUUGGG
......................................(..((((((((((.((((..((.....))..))))...))))))))))..).. (-15.54 = -15.58 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:32 2006