Locus 6462

Sequence ID 3R_DroMel_CAF1
Location 16,978,293 – 16,978,413
Length 120
Max. P 0.947220
window10524 window10525

overview

Window 4

Location 16,978,293 – 16,978,413
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -29.78
Consensus MFE -29.90
Energy contribution -29.02
Covariance contribution -0.88
Combinations/Pair 1.12
Mean z-score -2.07
Structure conservation index 1.00
SVM decision value 1.37
SVM RNA-class probability 0.947220
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16978293 120 + 27905053
GGUACUUUUAGGGAGUUCAUGCAUUUUGUUCGUGUUUAAUGCAGAAUCAGAGAUUCCUUUUCGAACAUAGACUUAAAGAGUUUGAGAAGAAUCUCUUUCUUUUCAACCUACUCUUUUAUG
.((.(....((((((((..((.(((((((...........)))))))))..))))))))...).))........(((((((((((((((((.....))))))))))...))))))).... ( -29.40)
>DroSec_CAF1 5065 120 + 1
GGUACUUUUGGGGAGUUCGUGCAUUUUAUUCGUGCUUAAUGCAGAAUCAGAGAUUCCUUUUCGAACAUAGACUUAAAGAGUUUGAGAAGAAUCUUUCUCCUUUCAACCUACUCUUUUAUG
(((......(((((((((.((((((............))))))))))..(((((((.(((((((((.............))))))))))))))))))))).....)))............ ( -29.52)
>DroSim_CAF1 5362 120 + 1
GGUACUUUUGGGGAGUUCGUGCAUUUUAUUCGUGCUUAAUGCAGAAUCAGAGAUUCCUUUUCGAACAUAGACUUAAAGAGUUUGAGAAGAAUCUCUCUCUUUUCAACCUACUCUUUUAUG
((((...(((..((((((.((((((............)))))))))..((((((((.(((((((((.............)))))))))))))))))..)))..)))..))))........ ( -30.42)
>consensus
GGUACUUUUGGGGAGUUCGUGCAUUUUAUUCGUGCUUAAUGCAGAAUCAGAGAUUCCUUUUCGAACAUAGACUUAAAGAGUUUGAGAAGAAUCUCUCUCUUUUCAACCUACUCUUUUAUG
(((......(((((((((.((((((............))))))))))..(((((((.(((((((((.............))))))))))))))))))))).....)))............ (-29.90 = -29.02 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 16,978,293 – 16,978,413
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -24.00
Consensus MFE -23.76
Energy contribution -23.10
Covariance contribution -0.66
Combinations/Pair 1.09
Mean z-score -1.64
Structure conservation index 0.99
SVM decision value 0.51
SVM RNA-class probability 0.763427
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16978293 120 - 27905053
CAUAAAAGAGUAGGUUGAAAAGAAAGAGAUUCUUCUCAAACUCUUUAAGUCUAUGUUCGAAAAGGAAUCUCUGAUUCUGCAUUAAACACGAACAAAAUGCAUGAACUCCCUAAAAGUACC
....(((((((...((((.(((((.....))))).)))))))))))........(((((....((((((...))))))(((((............))))).))))).............. ( -22.40)
>DroSec_CAF1 5065 120 - 1
CAUAAAAGAGUAGGUUGAAAGGAGAAAGAUUCUUCUCAAACUCUUUAAGUCUAUGUUCGAAAAGGAAUCUCUGAUUCUGCAUUAAGCACGAAUAAAAUGCACGAACUCCCCAAAAGUACC
....(((((((...((((..(((((.....))))))))))))))))........(((((....((((((...))))))(((((............))))).))))).............. ( -23.80)
>DroSim_CAF1 5362 120 - 1
CAUAAAAGAGUAGGUUGAAAAGAGAGAGAUUCUUCUCAAACUCUUUAAGUCUAUGUUCGAAAAGGAAUCUCUGAUUCUGCAUUAAGCACGAAUAAAAUGCACGAACUCCCCAAAAGUACC
.........((((..(..((((((.((((....))))...)))))).)..))))(((((....((((((...))))))(((((............))))).))))).............. ( -25.80)
>consensus
CAUAAAAGAGUAGGUUGAAAAGAGAGAGAUUCUUCUCAAACUCUUUAAGUCUAUGUUCGAAAAGGAAUCUCUGAUUCUGCAUUAAGCACGAAUAAAAUGCACGAACUCCCCAAAAGUACC
....(((((((...((((.(((((.....))))).)))))))))))........(((((....((((((...))))))(((((............))))).))))).............. (-23.76 = -23.10 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:04 2006