Locus 10340

Sequence ID 3R_DroMel_CAF1
Location 27,818,938 – 27,819,049
Length 111
Max. P 0.643805
window16456

overview

Window 6

Location 27,818,938 – 27,819,049
Length 111
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 74.63
Mean single sequence MFE -26.73
Consensus MFE -9.43
Energy contribution -11.97
Covariance contribution 2.54
Combinations/Pair 1.29
Mean z-score -1.80
Structure conservation index 0.35
SVM decision value 0.23
SVM RNA-class probability 0.643805
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27818938 111 - 27905053
CGGGGUAAAUCGCCCUGUUGAUAGUUGGCUUUGCUUUUAUACUCUAUUUCUGUGAGGGAAGCUUAUAU--------UUUCUGAGCACACACAUUUUUACGAUGUGUCUAGACGAUCAUA
((((((.....)))))).((((.(((.((((.(((((....(((.........))).)))))......--------.....))))..(((((((.....)))))))...))).)))).. ( -25.90)
>DroSec_CAF1 133273 109 - 1
CUGAGUAAAUCGCUCUGU-GAUUGUUGGCCUUGCUUCUAUACUCUAUUUCUGCGAGGGAAGCU-CUGU--------UUUCUGAGCACACACAUUUCUACAAUGUGUCUAGACGAUCAUA
..((((.....))))(((-(((((((..((((((.................))))))...(((-(...--------.....))))..(((((((.....)))))))...)))))))))) ( -31.33)
>DroSim_CAF1 134744 109 - 1
CUGAGUAAAUCGCUCUGU-GAUUGUUGGCCUUGCUUCUAUACUCUAUUUCUGCGAGGGAAGCU-CUGU--------UUUCUGAGCACACACAUUUCUACAAUGUGUCUAGACGAUCAUA
..((((.....))))(((-(((((((..((((((.................))))))...(((-(...--------.....))))..(((((((.....)))))))...)))))))))) ( -31.33)
>DroEre_CAF1 152228 103 - 1
CUGAGUAAAUUGCUCUGA-GAUUGAUGUCCU-AUUUCUAUACUCUAUUUAUGUGAAGAAAUGUUAUAUUGCUCUGAUUUCUUAGCACACACA--------------CUAAAAGAUCAUA
..((((.....)))).((-(...(((((..(-((((((.(((.........))).)))))))..))))).)))((((((.((((........--------------)))).)))))).. ( -20.40)
>DroYak_CAF1 136149 110 - 1
CUGAGUGAUUUGCUCUGA-GCUUGGUAUCCU-AUGUCUAUACUCUAUUUCUGUAUGGGAAUGUUAUAUCUG-------UCUGAGCACACACAUAUAUAUGAUGUUGCUAUAAGAUCAUA
....(((...(((((.((-.(..(((((..(-((..((((((.........))))))..)))..))))).)-------)).)))))..))).....((((((.(((...))).)))))) ( -24.70)
>consensus
CUGAGUAAAUCGCUCUGU_GAUUGUUGGCCUUGCUUCUAUACUCUAUUUCUGUGAGGGAAGCUUAUAU________UUUCUGAGCACACACAUUUCUACAAUGUGUCUAGACGAUCAUA
..((((.....))))....(((((((..((((((.................))))))..............................(((((((.....)))))))...)))))))... ( -9.43 = -11.97 +   2.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:54:25 2006