Locus 5755

Sequence ID 2R_DroMel_CAF1
Location 18,216,127 – 18,216,224
Length 97
Max. P 0.946301
window9219 window9220

overview

Window 9

Location 18,216,127 – 18,216,224
Length 97
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 79.79
Mean single sequence MFE -18.43
Consensus MFE -13.77
Energy contribution -14.10
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.75
SVM decision value 0.48
SVM RNA-class probability 0.752736
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18216127 97 + 20766785
CUCUUAAAAAGCAGCAGACUACUAAUCAGUUUGUCUGAAAUCGAUAUCGCCUACUAAGAUAU------UGUUAGAUAUUGUUAGGCAUUUGAAGAAACUGUUU
........(((((((((((.(((....)))..)))))...((((....(((((....(((((------(....))))))..)))))..)))).....)))))) ( -22.20)
>DroSec_CAF1 13993 86 + 1
CUCUUAAAAGGCAGCAGACUACUAAUCAGUUUGUCUGAAUUUGAUAUCGCCUACUAAGAUUUUUUAAAUAUUAGAUAUUGUUAAGC-----------------
.(((((..((((..(((((.(((....)))..))))).....(....)))))..)))))...........................----------------- ( -15.80)
>DroSim_CAF1 14177 86 + 1
CUCUUAAAAGGCAGCAGACUACUAAUCAGUUUGUCUGAAAUUGAUAUCGCCUACUAAGAUUUUUUAACUAUUAGAUAUUGUUAAGC-----------------
.(((((..((((..(((((.(((....)))..))))).....(....)))))..)))))...((((((...........)))))).----------------- ( -17.30)
>consensus
CUCUUAAAAGGCAGCAGACUACUAAUCAGUUUGUCUGAAAUUGAUAUCGCCUACUAAGAUUUUUUAA_UAUUAGAUAUUGUUAAGC_________________
.(((((..((((..(((((.(((....)))..))))).....(....)))))..)))))............................................ (-13.77 = -14.10 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 18,216,127 – 18,216,224
Length 97
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 79.79
Mean single sequence MFE -16.03
Consensus MFE -14.92
Energy contribution -14.70
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.06
Structure conservation index 0.93
SVM decision value 1.36
SVM RNA-class probability 0.946301
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18216127 97 - 20766785
AAACAGUUUCUUCAAAUGCCUAACAAUAUCUAACA------AUAUCUUAGUAGGCGAUAUCGAUUUCAGACAAACUGAUUAGUAGUCUGCUGCUUUUUAAGAG
...((((((..((....(((((...((((......------)))).....)))))((........)).)).))))))...(((((....)))))......... ( -16.30)
>DroSec_CAF1 13993 86 - 1
-----------------GCUUAACAAUAUCUAAUAUUUAAAAAAUCUUAGUAGGCGAUAUCAAAUUCAGACAAACUGAUUAGUAGUCUGCUGCCUUUUAAGAG
-----------------...........................((((((.(((((....).....(((((..(((....))).)))))..)))).)))))). ( -15.60)
>DroSim_CAF1 14177 86 - 1
-----------------GCUUAACAAUAUCUAAUAGUUAAAAAAUCUUAGUAGGCGAUAUCAAUUUCAGACAAACUGAUUAGUAGUCUGCUGCCUUUUAAGAG
-----------------..(((((...........)))))....((((((.(((((....).....(((((..(((....))).)))))..)))).)))))). ( -16.20)
>consensus
_________________GCUUAACAAUAUCUAAUA_UUAAAAAAUCUUAGUAGGCGAUAUCAAUUUCAGACAAACUGAUUAGUAGUCUGCUGCCUUUUAAGAG
............................................((((((.(((((....).....(((((..(((....))).)))))..)))).)))))). (-14.92 = -14.70 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:36 2006