Locus 5343

Sequence ID 2R_DroMel_CAF1
Location 17,282,644 – 17,282,750
Length 106
Max. P 0.527325
window8537

overview

Window 7

Location 17,282,644 – 17,282,750
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 71.62
Mean single sequence MFE -19.97
Consensus MFE -7.80
Energy contribution -7.58
Covariance contribution -0.22
Combinations/Pair 1.21
Mean z-score -1.80
Structure conservation index 0.39
SVM decision value -0.01
SVM RNA-class probability 0.527325
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17282644 106 + 20766785
AACUAUUAGGUCUUUACCUAAACACUUAAUGCAAGUGGCG----UUAAGUGUUUAAGCU---------UUAAUUAAUCAAUACGUCUCGGUCUUUUGAUUAGAAAUUCCC-ACUUGUCAG
..((..(((((.......((((((((((((((.....)))----)))))))))))....---------....((((((((.((......))...))))))))........-)))))..)) ( -24.20)
>DroPse_CAF1 8589 106 + 1
CCCUAU-------------AAUAACUGCA-UCAAUUGGAGCUUCUGAAGUGAUUAAAUUUCUGUUAAUCCCAUCAAUCAAUACGUUCUGCUCUUUCCACUUGAAAUACCCCUUUUCUCAG
......-------------..........-((((.(((((....(((.(.((((((.......)))))).).)))........(.....)...))))).))))................. ( -10.70)
>DroSec_CAF1 5801 106 + 1
AACUAUUAAGUCUUUACCCAAACACUUAAUGCAAGUGGCG----UUAAGUGUUUAAGCU---------CUAAUUAAUCAAUAUCUUUCGGUCUUUUGAUUAGAAAUUCCC-ACUUGUCAG
..((..(((((........(((((((((((((.....)))----))))))))))....(---------((((((((.....(((....)))...))))))))).......-)))))..)) ( -24.50)
>DroSim_CAF1 7782 106 + 1
AACUAUUAAGUCUUUACCCAAACACUUAAUGCAAGUGGCG----UUAAGUGUUUAAGCU---------CUAAUUAAUCAAUAUCUUUCGGUCUUUUGAUUAGAAAUUCCC-ACUUGUCAG
..((..(((((........(((((((((((((.....)))----))))))))))....(---------((((((((.....(((....)))...))))))))).......-)))))..)) ( -24.50)
>DroEre_CAF1 2300 106 + 1
GACUAUUAAGACUUUACCCAAACACUUAAUGCAAGUGGCG----UUAAGUGUUUAAGCU---------CUAAUUAAUCAAUAUCUCUCGGUCUUUUGAUUAGAAAUUCCC-ACUUGUCAG
.........(((.......(((((((((((((.....)))----))))))))))....(---------((((((((.....(((....)))...))))))))).......-....))).. ( -25.20)
>DroPer_CAF1 8482 106 + 1
CCCUAU-------------AAUAACUGCA-UCAAUUGGAGCUUCUGAAGUGAUUAAAUUUCUGUUAAUCCCAUCAAUCAAUACGUUCUGCUCUUUCCACUUGAAAUACCCCUUUUCUCAG
......-------------..........-((((.(((((....(((.(.((((((.......)))))).).)))........(.....)...))))).))))................. ( -10.70)
>consensus
AACUAUUAAGUCUUUACCCAAACACUUAAUGCAAGUGGCG____UUAAGUGUUUAAGCU_________CUAAUUAAUCAAUACCUUUCGGUCUUUUGAUUAGAAAUUCCC_ACUUGUCAG
...................(((((((((((((.....)))....))))))))))..................................((..((((.....))))..))........... ( -7.80 =  -7.58 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:37 2006