Locus 8520

Sequence ID X_DroMel_CAF1
Location 21,084,440 – 21,084,551
Length 111
Max. P 0.938422
window14024 window14025

overview

Window 4

Location 21,084,440 – 21,084,551
Length 111
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 81.37
Mean single sequence MFE -21.38
Consensus MFE -13.91
Energy contribution -13.80
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -1.74
Structure conservation index 0.65
SVM decision value 0.03
SVM RNA-class probability 0.550011
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21084440 111 + 22224390
AAAACAUUACCGCAAUAUCCUACUUGCUAGACAGGCACAUGAAUGCAUAUAUACAGCACAUAUUAUAC--GGGGUUAUAGCACAACCCCGCUCGCUGCCUCUGUUGCAGCGUU
...........((...........((((......(((......)))........))))..........--((((((.......)))))))).((((((.......)))))).. ( -25.24)
>DroSec_CAF1 14593 96 + 1
AAAACAUUACCGCAAUAUCCUACUUGCUAGACAGGCACAUGUAUGCAUACACACAGCACAUACUAUAUAUGUACAUAUAGC-----------------UCCUGUUGCAGCGUU
.........................(((.((((((....(((((((.........))(((((.....)))))..)))))..-----------------.))))))..)))... ( -16.40)
>DroSim_CAF1 14858 96 + 1
AAAACAUUACCGCAAUAUCCUACUUGCUAGACAGGCACAUGUAUGCAUACACACAGCACAUACUAUAUAUGUGCAUAUAGC-----------------UCCUGUUGCAGCGUU
.........................(((.((((((....((((((((((.....((......)).....))))))))))..-----------------.))))))..)))... ( -22.50)
>consensus
AAAACAUUACCGCAAUAUCCUACUUGCUAGACAGGCACAUGUAUGCAUACACACAGCACAUACUAUAUAUGUGCAUAUAGC_________________UCCUGUUGCAGCGUU
.........................(((.((((((...(((..(((.........)))))).((((((......))))))...................))))))..)))... (-13.91 = -13.80 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 21,084,440 – 21,084,551
Length 111
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 81.37
Mean single sequence MFE -32.80
Consensus MFE -19.49
Energy contribution -21.17
Covariance contribution 1.67
Combinations/Pair 1.10
Mean z-score -2.94
Structure conservation index 0.59
SVM decision value 1.27
SVM RNA-class probability 0.938422
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21084440 111 - 22224390
AACGCUGCAACAGAGGCAGCGAGCGGGGUUGUGCUAUAACCCC--GUAUAAUAUGUGCUGUAUAUAUGCAUUCAUGUGCCUGUCUAGCAAGUAGGAUAUUGCGGUAAUGUUUU
..((((((.......)))))).((((((((((...))))))))--))..(((((.(((((((((((((....))))))((((.((....))))))....)))))))))))).. ( -37.80)
>DroSec_CAF1 14593 96 - 1
AACGCUGCAACAGGA-----------------GCUAUAUGUACAUAUAUAGUAUGUGCUGUGUGUAUGCAUACAUGUGCCUGUCUAGCAAGUAGGAUAUUGCGGUAAUGUUUU
...(((((((((((.-----------------((..((((((.(((((((((....))))))))).))))))...)).))))((((.....))))...)))))))........ ( -29.30)
>DroSim_CAF1 14858 96 - 1
AACGCUGCAACAGGA-----------------GCUAUAUGCACAUAUAUAGUAUGUGCUGUGUGUAUGCAUACAUGUGCCUGUCUAGCAAGUAGGAUAUUGCGGUAAUGUUUU
...(((((((((((.-----------------((..((((((.(((((((((....))))))))).))))))...)).))))((((.....))))...)))))))........ ( -31.30)
>consensus
AACGCUGCAACAGGA_________________GCUAUAUGCACAUAUAUAGUAUGUGCUGUGUGUAUGCAUACAUGUGCCUGUCUAGCAAGUAGGAUAUUGCGGUAAUGUUUU
...(((((((......................((..((((((.(((((((((....))))))))).))))))...)).((((.((....))))))...)))))))........ (-19.49 = -21.17 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:24 2006