Locus 3179

Sequence ID 2R_DroMel_CAF1
Location 10,867,295 – 10,867,385
Length 90
Max. P 0.640120
window5231 window5232

overview

Window 1

Location 10,867,295 – 10,867,385
Length 90
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 87.80
Mean single sequence MFE -26.80
Consensus MFE -19.55
Energy contribution -22.05
Covariance contribution 2.50
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.73
SVM decision value 0.16
SVM RNA-class probability 0.610266
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10867295 90 + 20766785
AGCAUAUGUAGAGGCCACUCGGGCUCCUAUGUAUAUGCGU-UAUGUAGGAUCCAGGGUUCAGGGUCUUAACACUGGAUUAGAUGUCGAUCG
.((((((((((..(((.....)))..))))..))))))..-.((((..(((((((.(((.((...)).))).)))))))..))))...... ( -27.30)
>DroSec_CAF1 7825 87 + 1
AGCAUAUGUAGAGGCCAUUCGGGCUCCUA----UAUGCAUGUAUGUAGGAUCCAGGGUUCAGGGUCUUAACACUGGAUUAGAUGUCGAUCG
.(((((((..(((.((....)).))).))----))))).((.((((..(((((((.(((.((...)).))).)))))))..)))))).... ( -26.50)
>DroSim_CAF1 8181 91 + 1
AGCAUAUGUAGAGGCCAUUCGGGCUUCUAUGUAUAUGCAUGUAUGUAGGAUCCAGGGUUCAGGGUCUUAACACUGGAUUAGAUGUCGAUCG
.(((((((((((((((.....)))))))))..)))))).((.((((..(((((((.(((.((...)).))).)))))))..)))))).... ( -31.60)
>DroEre_CAF1 9147 77 + 1
AGCAUAUGCAGAGGCCAUUCGGGCUGCUA--------------UGUAGGAUCCAGGGUUCAGGGACUCAACACUGGAUUAGAUGUCGAUCG
.(((((.((((...((....)).))))))--------------)))..(((((((.(((.((...)).))).))))))).(((....))). ( -21.80)
>consensus
AGCAUAUGUAGAGGCCAUUCGGGCUCCUA____UAUGCAU_UAUGUAGGAUCCAGGGUUCAGGGUCUUAACACUGGAUUAGAUGUCGAUCG
.((((((((((.((((.....)))).))))..))))))......((..(((((((.(((.((...)).))).)))))))..))........ (-19.55 = -22.05 +   2.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 10,867,295 – 10,867,385
Length 90
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 87.80
Mean single sequence MFE -20.07
Consensus MFE -15.99
Energy contribution -17.68
Covariance contribution 1.69
Combinations/Pair 1.08
Mean z-score -1.54
Structure conservation index 0.80
SVM decision value 0.22
SVM RNA-class probability 0.640120
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10867295 90 - 20766785
CGAUCGACAUCUAAUCCAGUGUUAAGACCCUGAACCCUGGAUCCUACAUA-ACGCAUAUACAUAGGAGCCCGAGUGGCCUCUACAUAUGCU
.............((((((.(((.((...)).))).))))))........-..((((((...(((..(((.....)))..))).)))))). ( -21.40)
>DroSec_CAF1 7825 87 - 1
CGAUCGACAUCUAAUCCAGUGUUAAGACCCUGAACCCUGGAUCCUACAUACAUGCAUA----UAGGAGCCCGAAUGGCCUCUACAUAUGCU
.............((((((.(((.((...)).))).))))))...........(((((----(((..(((.....)))..)))..))))). ( -20.30)
>DroSim_CAF1 8181 91 - 1
CGAUCGACAUCUAAUCCAGUGUUAAGACCCUGAACCCUGGAUCCUACAUACAUGCAUAUACAUAGAAGCCCGAAUGGCCUCUACAUAUGCU
.............((((((.(((.((...)).))).))))))...........((((((...((((.(((.....))).)))).)))))). ( -20.90)
>DroEre_CAF1 9147 77 - 1
CGAUCGACAUCUAAUCCAGUGUUGAGUCCCUGAACCCUGGAUCCUACA--------------UAGCAGCCCGAAUGGCCUCUGCAUAUGCU
.............((((((.(((.((...)).))).))))))....((--------------((((((.((....))...)))).)))).. ( -17.70)
>consensus
CGAUCGACAUCUAAUCCAGUGUUAAGACCCUGAACCCUGGAUCCUACAUA_AUGCAUA____UAGGAGCCCGAAUGGCCUCUACAUAUGCU
.............((((((.(((.((...)).))).))))))...........((((((...((((.(((.....))).)))).)))))). (-15.99 = -17.68 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:21 2006