Locus 1977

Sequence ID 2R_DroMel_CAF1
Location 7,467,008 – 7,467,122
Length 114
Max. P 0.646984
window3272

overview

Window 2

Location 7,467,008 – 7,467,122
Length 114
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 88.27
Mean single sequence MFE -27.96
Consensus MFE -20.80
Energy contribution -20.88
Covariance contribution 0.08
Combinations/Pair 1.14
Mean z-score -1.72
Structure conservation index 0.74
SVM decision value 0.24
SVM RNA-class probability 0.646984
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7467008 114 - 20766785
GAGCCAUAAAAAGACCCACACACCCAAGGCCUAUACUGUUGGGCCCACCACUAACACUCCUUGAUAAAAGCCAAAAGGGUUAGCUUUUGGCUGUUA---GUUACCAGUUAGCAGCUU
((((.......................((((((......)))))).....(((((.........(((.(((((((((......))))))))).)))---.......)))))..)))) ( -28.49)
>DroSec_CAF1 83532 117 - 1
GAGCCAUAAAAAGACCCACACACCCAAGGCCUAUACUGUUGGGCCCACCACUAACACUCCUUGAUAAAAGCCAAAAGGGUUGGCUUUUGGCUGUUAGCAGUUACCAGUUAGCAGCUU
((((((.......((((..........((((((......))))))..............(((.....)))......))))))))))..((((((((((........)))))))))). ( -34.51)
>DroSim_CAF1 75770 113 - 1
GAGCCAUAA-AAGACCCACACACCCAAGGCCUAUACUGUGUGGCCCACCACCAACACUCCUUGAUAAAAGCCAAAAGGGUUGGCUUUUGGCUGUUA---GUUACCAGUUAGCAGCUU
.........-..............(((((.......((.((((....)))))).....))))).((((((((((.....))))))))))(((((((---(.......)))))))).. ( -29.20)
>DroEre_CAF1 83087 103 - 1
CAGCCAUAAAAAGACCCACACACCCAAGGCUCAUGCUAUCGGGCCC---ACUAACACUCCUUGAUAAAAGCCAAAAGGGUUG-------GCUGUUA---GUUACCA-UUAGCAGCUU
............(((((..........(((((........))))).---..........(((.....)))......)))))(-------(((((((---((....)-))))))))). ( -25.00)
>DroYak_CAF1 81735 104 - 1
UAGCCAUAAAAAGACUCACACACCCAAGGCUUAUACCAUUGGGCCC---ACUAACACUCCUUGAUAAAAGCCAAAAGGGUUG-------GCUGUUA---GUUACCAGUUAGCAGCUU
..................((.((((..(((((.((.((..(((...---.......)))..)).)).)))))....))))))-------(((((((---(.......)))))))).. ( -22.60)
>consensus
GAGCCAUAAAAAGACCCACACACCCAAGGCCUAUACUGUUGGGCCCACCACUAACACUCCUUGAUAAAAGCCAAAAGGGUUGGCUUUUGGCUGUUA___GUUACCAGUUAGCAGCUU
............(((((..........((((((......))))))..............(((.....)))......)))))........(((((((............))))))).. (-20.80 = -20.88 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:55 2006