Locus 2757

Sequence ID X_DroMel_CAF1
Location 7,427,614 – 7,427,710
Length 96
Max. P 0.971626
window4501 window4502

overview

Window 1

Location 7,427,614 – 7,427,710
Length 96
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 80.90
Mean single sequence MFE -21.30
Consensus MFE -14.70
Energy contribution -15.20
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.38
Structure conservation index 0.69
SVM decision value 1.68
SVM RNA-class probability 0.971626
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7427614 96 + 22224390
UCACCGGAUCACCGGAUCACCGGAUCACCGGAUAUCCUAGGCAACAAGAUUCCAAUGAUCCUGCCACUCCUUUGUCGGCAUUUCAAUUUCAUGG-----UA
..(((((((((..(((((.((((....))))........(....)..)).)))..))))))((((((......)).))))............))-----). ( -29.90)
>DroSec_CAF1 176419 77 + 1
-------------------CCGGAUCCCCGGAUAUCCUAGGCAACAAGAUUCCAAUGAUCCUGCCACUCCUUUGUCGGCAUUUAAAUUUCAAGG-----UA
-------------------(((((((...(((.(((...(....)..))))))...)))))((((((......)).))))............))-----.. ( -19.30)
>DroSim_CAF1 178335 77 + 1
-------------------CCGGAUCCCCGGAUAUCCUAGGCAACAAGAUUCCAAUGAUCCUGCCACUCCUUUGUCGGCAUUUCAAUUUCAUGG-----UA
-------------------(((((((...(((.(((...(....)..))))))...)))))((((((......)).))))............))-----.. ( -19.10)
>DroYak_CAF1 218237 82 + 1
-------------------CCGCAUCGCCGGAUAUCCUAUGCAACAAGAUUCCAAUGAUCCUGCCACUCCUUUGUCGGCACUUCAAUUGCAAAGGUACACA
-------------------(((......)))....(((.(((((...((((.....)))).((((((......)).))))......))))).)))...... ( -16.90)
>consensus
___________________CCGGAUCCCCGGAUAUCCUAGGCAACAAGAUUCCAAUGAUCCUGCCACUCCUUUGUCGGCAUUUCAAUUUCAAGG_____UA
.....................(((((...(((.(((...(....)..))))))...)))))((((((......)).))))..................... (-14.70 = -15.20 +   0.50)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 7,427,614 – 7,427,710
Length 96
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 80.90
Mean single sequence MFE -26.15
Consensus MFE -21.06
Energy contribution -21.12
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -1.91
Structure conservation index 0.81
SVM decision value 1.01
SVM RNA-class probability 0.900075
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7427614 96 - 22224390
UA-----CCAUGAAAUUGAAAUGCCGACAAAGGAGUGGCAGGAUCAUUGGAAUCUUGUUGCCUAGGAUAUCCGGUGAUCCGGUGAUCCGGUGAUCCGGUGA
((-----((............((((.((......))))))(((((((((((((((((.....)))))).)))))))))))))))..((((....))))... ( -37.00)
>DroSec_CAF1 176419 77 - 1
UA-----CCUUGAAAUUUAAAUGCCGACAAAGGAGUGGCAGGAUCAUUGGAAUCUUGUUGCCUAGGAUAUCCGGGGAUCCGG-------------------
..-----((............((((.((......))))))(((((.(((((((((((.....)))))).))))).)))))))------------------- ( -23.30)
>DroSim_CAF1 178335 77 - 1
UA-----CCAUGAAAUUGAAAUGCCGACAAAGGAGUGGCAGGAUCAUUGGAAUCUUGUUGCCUAGGAUAUCCGGGGAUCCGG-------------------
..-----((............((((.((......))))))(((((.(((((((((((.....)))))).))))).)))))))------------------- ( -23.80)
>DroYak_CAF1 218237 82 - 1
UGUGUACCUUUGCAAUUGAAGUGCCGACAAAGGAGUGGCAGGAUCAUUGGAAUCUUGUUGCAUAGGAUAUCCGGCGAUGCGG-------------------
.((((..((((......))))((((.........(..((((((((....).)))))))..)...((....))))))))))..------------------- ( -20.50)
>consensus
UA_____CCAUGAAAUUGAAAUGCCGACAAAGGAGUGGCAGGAUCAUUGGAAUCUUGUUGCCUAGGAUAUCCGGGGAUCCGG___________________
.......((............((((.((......))))))(((((.(((((((((((.....)))))).))))).)))))))................... (-21.06 = -21.12 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:28 2006