Locus 5539

Sequence ID X_DroMel_CAF1
Location 14,331,994 – 14,332,090
Length 96
Max. P 0.694070
window8992

overview

Window 2

Location 14,331,994 – 14,332,090
Length 96
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 72.20
Mean single sequence MFE -15.60
Consensus MFE -4.93
Energy contribution -5.23
Covariance contribution 0.31
Combinations/Pair 1.23
Mean z-score -2.13
Structure conservation index 0.32
SVM decision value 0.34
SVM RNA-class probability 0.694070
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14331994 96 + 22224390
------AAAUAACAGCGCUGAGAAGAUGACAAC-AACGAGUC--CAAACUUCUCUGGAUUCCGCGCUUUCUUCAGUCCCUUUCCAUAAAUCUUAAAUUAUAAA-AA
------.......(((((.((((((..(((...-.....)))--....)))))).((...)))))))....................................-.. ( -16.00)
>DroSec_CAF1 44353 85 + 1
---AAAAAAAAACAGCGCUGAGAAGAUA-----------------AAACUUCUCUGGAUUCCGCGCUUUCUUCAGUCCCUUUCCAUAAAUCUAAAAUUAUAAA-AA
---..........(((((.((((((...-----------------...)))))).((...)))))))....................................-.. ( -14.20)
>DroSim_CAF1 41692 88 + 1
AUAAAAAAAAAACAGCGUUGAGAAGAUA-----------------AAACUUCUCUGGAUUCCGCGCUUUCUUCAGUCCCUUUCCAUAAAUCUAAAAUUAUAAA-AA
.............(((((.((((((...-----------------...)))))).((...)))))))....................................-.. ( -11.70)
>DroEre_CAF1 43262 101 + 1
U-AAAUAAAAAACCACAUUGAGAAGACAGCAAC-AACGCGCC--CAAACUUCUCUGGAUUCCGCGCUUUCUUCAGUGCCUUUCCAUAAAUCUAAAAUUAUAAA-AA
.-.................((((((...((...-...))...--....))))))((((....(((((......)))))...))))..................-.. ( -16.60)
>DroYak_CAF1 46509 101 + 1
A-AAAAAAUAAACAACAUUGAGAAGAUAACAAC-AACGAGUC--AAAACUUCUCUGGAUUGCGCGCUUUCUUCAGCGCCUUUCCAUAAAUCUAAAAUUAUAAA-AA
.-.................((((((......((-.....)).--....))))))((((..(.(((((......))))))..))))..................-.. ( -18.80)
>DroPer_CAF1 50672 89 + 1
C-----CAAUAGCCCCUGCAAAAGAAGGGUAUCGGA------AACCCUCUUCUUUGU------GGCUUUCUUCAGGCUUUUUCCAUAAAUCUAAAAUUGUAAAAAA
.-----((((((((...(((((.((((((....(..------..).)))))))))))------)))).......((......))...........))))....... ( -16.30)
>consensus
___AAAAAAAAACAGCGUUGAGAAGAUA_CAAC_AA________CAAACUUCUCUGGAUUCCGCGCUUUCUUCAGUCCCUUUCCAUAAAUCUAAAAUUAUAAA_AA
...................((((((.......................))))))((((......(((......))).....))))..................... ( -4.93 =  -5.23 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:27 2006