Locus 5059

Sequence ID 3R_DroMel_CAF1
Location 13,329,197 – 13,329,315
Length 118
Max. P 0.500000
window8252

overview

Window 2

Location 13,329,197 – 13,329,315
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.84
Mean single sequence MFE -28.26
Consensus MFE -22.34
Energy contribution -21.74
Covariance contribution -0.60
Combinations/Pair 1.17
Mean z-score -1.37
Structure conservation index 0.79
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13329197 118 - 27905053
GUUUU-UCCAUUCUUCUGAGUGCUACUGCACUCUGCAAUUCUGUUUGAUGCCAGUUGGGCUUCUAGCUUUUAUUAAAGACUGCAGGGCUGAAAACGGAUAAAUG-UUGCAUAUUUUUAAG
.....-...........((((((....))))))(((((((((((((...(((((((((....))))))...........(....))))...))))))).....)-))))).......... ( -29.40)
>DroSec_CAF1 81635 118 - 1
UUUUC-CCCAUUCUUCUGAGUGUUACUGCAUUCUGCAAUUCUGUUUGAUGCCAGUUGGGUUUCUAGCUUUUAUUAAAGACUGCAGGGCUGAAAACGGAUAAAAG-UUGCAUAUUUUUAAA
(((((-(((........((((((....))))))((((..(((..((((((..((((((....))))))..))))))))).)))))))..)))))....((((((-(.....))))))).. ( -25.10)
>DroSim_CAF1 85904 117 - 1
UUCUC--CCAUUCUUCUGAGUGCUACUGCAUUCUGCAAUUCUGUUUGAUGCCAGUUGGAUUUCUAGCUUUUAUUAAAGACUGCAGGGCUGAAAACGGAUAAAUG-UUGCAUAUUUUUAAA
.....--..........((((((....))))))(((((((((((((...(((((((((....))))))...........(....))))...))))))).....)-))))).......... ( -28.00)
>DroEre_CAF1 82940 120 - 1
UUUUUGCCCAUUCCCCUGAGUGCUACUGCAUUCUGCAAUUCUGUUCGAUGCCAGUUGGGUUUCUAGCAUUUAUUAAAGACUGCAGUGCUGCAAGCGGAUACAUAUUUGCAUAUUUUUGAA
...((((.(((((....))))).(((((((.(((..(((..((((.((.(((.....))).)).))))...)))..))).)))))))..))))((((((....))))))........... ( -29.50)
>DroYak_CAF1 99190 119 - 1
UUUUU-CCCAUUCUCCCGAGUACUACUGCAUUCUGCAAUUCUGUUUGAUGCCAGUUGGGUUUCUAGCAUUUAUUAAAGACUGCAGUGCUGAAAGCGGAUACAUAUUUGCAUAUUUUGGAA
.....-.......(((.(((((.(((((((.(((..(((..((((.((.(((.....))).)).))))...)))..))).)))))))......((((((....)))))).))))).))). ( -29.30)
>consensus
UUUUU_CCCAUUCUUCUGAGUGCUACUGCAUUCUGCAAUUCUGUUUGAUGCCAGUUGGGUUUCUAGCUUUUAUUAAAGACUGCAGGGCUGAAAACGGAUAAAUG_UUGCAUAUUUUUAAA
.................((((((....))))))(((((.(((((((((.(((.....))).))(((((((.............))))))).))))))).......))))).......... (-22.34 = -21.74 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:13 2006