Locus 1226

Sequence ID 3L_DroMel_CAF1
Location 3,471,257 – 3,471,361
Length 104
Max. P 0.763447
window1927

overview

Window 7

Location 3,471,257 – 3,471,361
Length 104
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 86.60
Mean single sequence MFE -24.19
Consensus MFE -14.80
Energy contribution -14.68
Covariance contribution -0.12
Combinations/Pair 1.19
Mean z-score -2.91
Structure conservation index 0.61
SVM decision value 0.51
SVM RNA-class probability 0.763447
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3471257 104 - 23771897
CAUUGCAUACUUGCAGGA-----GCCUCCUUGUGAGAAACAAAAAA--AAAAGAGGAUUUCUAAAGUGGCAGCCAGGACAAAAAUAAAACGCUGCACAA-AACAGCAACGAA
..((((.(((((..((((-----(((((.((((.....))))....--....)))).))))).)))))(((((.................)))))....-....)))).... ( -22.13)
>DroSec_CAF1 2117 102 - 1
CAUUGCAUACUUGCAGGC-----GCCUCCUUGAGAAGAACAAAAAA--AA--AAGGAUUUCUAAAGUGGCAGCCAGGACAGAAAUAAAACGUUGCACAA-AACAGCAACGAA
...((((....))))(((-----(((..(((.(((((..(......--..--..)..))))).))).))).)))...............((((((....-....)))))).. ( -26.50)
>DroSim_CAF1 2246 101 - 1
UAUUGCAUACUUGCAGGC-----GCCUCCUUGAGAAAAACAAAAA---AA--AAGGAUUUCUAAAGUGGCAGCCAGGACAGAAAUAAAACGCUGCACAA-AACAGCAACGAA
...((((....))))(((-----(((..(((.(((((..(.....---..--..)..))))).))).))).)))................((((.....-..))))...... ( -23.20)
>DroEre_CAF1 17678 103 - 1
CAUUGCAUACUUGCAGGC-----GCCUGCUUGAGAAAUACAAAAAAUAAA--AAGGGUUUCCAAAGUGGCAGCCAGGACAAAAAUAAAACGCUGCACAAAAACAGCAGCG--
...((((....))))(((-----(((.((((..((((..(..........--..)..))))..))))))).)))...............((((((.........))))))-- ( -28.20)
>DroYak_CAF1 1989 105 - 1
CAUUGCAUACUUGCAGUAGCAUUGCAUACUUGAGAAAUACAAAAA---AA--AGGGUUUUCCAAAGUGGCAGCCAGGACGAAAAUAAAACGCUGCACAAAAACAGCAACG--
.((((((....))))))....((((.(((((..((((..(.....---..--.)...))))..)))))(((((.................))))).........))))..-- ( -20.93)
>consensus
CAUUGCAUACUUGCAGGC_____GCCUCCUUGAGAAAAACAAAAAA__AA__AAGGAUUUCUAAAGUGGCAGCCAGGACAAAAAUAAAACGCUGCACAA_AACAGCAACGAA
..(((((....))))).......(((.(.(((.((((..(..............)..))))))).).)))....................((((........))))...... (-14.80 = -14.68 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:35 2006