Locus 4343

Sequence ID 3R_DroMel_CAF1
Location 11,462,655 – 11,462,785
Length 130
Max. P 0.883903
window7102 window7103

overview

Window 2

Location 11,462,655 – 11,462,745
Length 90
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 77.06
Mean single sequence MFE -17.37
Consensus MFE -14.13
Energy contribution -14.47
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.42
Structure conservation index 0.81
SVM decision value 0.93
SVM RNA-class probability 0.883903
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11462655 90 - 27905053
UAAAACUCAGUUGAUUCGGAUUUCUCAGAAAUCCUUCUGAAGAAAUCUGAGUGCUUUU--------CAA-------UUUAU----AUUCUGUUUUGCCAAAUACGUAGA
((((((..((((((((((((((((((((((....))))).)))))))))))......)--------)))-------))...----.....))))))............. ( -19.70)
>DroSec_CAF1 196455 109 - 1
UAAAACACAGUUGAUUCGGAUUUCUCAGAAAUCCUUCUGAAGAAAUCAGAGUGCUCUUUAACCCUUCAAUCUACAAUUCAUCUCUCUUCUGUUAUUCCAAAUACGUUCG
......((((..((....((((((((((((....))))).)))))))((((....)))).........................))..))))................. ( -16.60)
>DroSim_CAF1 191609 109 - 1
AAAAACUCAGUUUAUUCGAAUUUCUCAGAAAUUCUUCUGAAGAAAUCAGAGUGCUCUUUAACCCUUCAAUUUACAAUUUAUCGCAAUUCUGUAAUGCAAAAUAUGUUCG
........((..(((((..(((((((((((....))))).))))))..)))))..)).........................(((.........)))............ ( -15.80)
>consensus
UAAAACUCAGUUGAUUCGGAUUUCUCAGAAAUCCUUCUGAAGAAAUCAGAGUGCUCUUUAACCCUUCAAU_UACAAUUUAUC_C_AUUCUGUUAUGCCAAAUACGUUCG
........(((..((((.((((((((((((....))))).))))))).)))))))...................................................... (-14.13 = -14.47 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 11,462,684 – 11,462,785
Length 101
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 88.07
Mean single sequence MFE -25.83
Consensus MFE -16.82
Energy contribution -16.27
Covariance contribution -0.55
Combinations/Pair 1.10
Mean z-score -3.08
Structure conservation index 0.65
SVM decision value 0.38
SVM RNA-class probability 0.714397
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11462684 101 - 27905053
AAAUUAUGGGACUUAUCGGGAAGCCAGAGUAUUUAUUAUUUAAAACUCAGUUGAUUCGGAUUUCUCAGAAAUCCUUCUGAAGAAAUCUGAGUGCUUUU--------CAA
.................(..((((..((((.((((.....)))))))).....(((((((((((((((((....))))).))))))))))))))))..--------).. ( -31.70)
>DroSec_CAF1 196495 109 - 1
AAAUUAUGGAACUUAUCAGGAAACCAGAGUAUAUAUUAUUUAAAACACAGUUGAUUCGGAUUUCUCAGAAAUCCUUCUGAAGAAAUCAGAGUGCUCUUUAACCCUUCAA
.................(((.....(((((((.............((....))..((.((((((((((((....))))).))))))).))))))))).....))).... ( -21.10)
>DroSim_CAF1 191649 109 - 1
AAAUUAUGGGACUUAUCAGGAAUCCAGAGUAUUUAUUAUUAAAAACUCAGUUUAUUCGAAUUUCUCAGAAAUUCUUCUGAAGAAAUCAGAGUGCUCUUUAACCCUUCAA
.......(((................((((.((((....)))).))))((..(((((..(((((((((((....))))).))))))..)))))..))....)))..... ( -24.70)
>consensus
AAAUUAUGGGACUUAUCAGGAAACCAGAGUAUUUAUUAUUUAAAACUCAGUUGAUUCGGAUUUCUCAGAAAUCCUUCUGAAGAAAUCAGAGUGCUCUUUAACCCUUCAA
......(((..((....))....)))((((((.......((((.......)))).((.((((((((((((....))))).))))))).))))))))............. (-16.82 = -16.27 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:50 2006