Locus 1202

Sequence ID X_DroMel_CAF1
Location 3,582,951 – 3,583,058
Length 107
Max. P 0.874239
window1931

overview

Window 1

Location 3,582,951 – 3,583,058
Length 107
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 70.03
Mean single sequence MFE -38.53
Consensus MFE -21.19
Energy contribution -20.19
Covariance contribution -1.00
Combinations/Pair 1.32
Mean z-score -1.78
Structure conservation index 0.55
SVM decision value 0.88
SVM RNA-class probability 0.874239
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3582951 107 + 22224390
GGCCCCCCCCCCCCCCAUUCAACCAUUUAUAACCCGCUUUUCUCUGCACUUCUUGUUGCAUC--GGGUGUACGGUGGC-U-AGCGGGGAAUGCGGGGUGGU---------UAUUGCACUU
.((.....((((((.(((((............((((((..((.(((.((..((((......)--))).)).))).)).-.-))))))))))).)))).)).---------....)).... ( -34.40)
>DroSec_CAF1 41873 89 + 1
GGCCC------------------CAUUUAUAGCCCGCUUUUCUCUGCACUUCUUGUUGCAUC--GGGUGUACGGGGGC-U-AGCGGGGAAUGUGGGGUGGU---------UAUUGCACUU
.((((------------------(((......((((((..((((((.((..((((......)--))).)).)))))).-.-))))))....)))))))...---------.......... ( -34.50)
>DroEre_CAF1 36599 107 + 1
AGCCC--------CUCUUUCAACCAUUUUUAAACCGCUUUUCCCUGCACUUCUCGUUGCAUC--UGGUGUGUGGU-UAGGGGGAGGGGGGAGUGGGGUGG--CUAGGGGGUAUUGCACUU
.((((--------(.((....(((.........((((((..((((.(.(((((..(..(((.--....)))..).-.))))))))))..)))))))))..--..)))))))......... ( -41.20)
>DroYak_CAF1 37644 108 + 1
G--UC--------CUCUUUCGACCAUUUUAAAACCGCUUUUCCCUGCACUUCUCGUUGCAUCGGUGGUGCGUGGG-GC-UGGGCGGGGAACGUGGGGUGGUGGUAGGGGGUACUGCACUU
(--((--------(((((.(.(((((((((...((((((.((((((((((.(.((......))).)))))).)))-).-.))))))......))))))))).).)))))).))....... ( -44.00)
>consensus
GGCCC________CUCUUUCAACCAUUUAUAAACCGCUUUUCCCUGCACUUCUCGUUGCAUC__GGGUGUACGGG_GC_U_AGCGGGGAAUGUGGGGUGGU_________UAUUGCACUU
.................................((((..((((((((....(((((.((((.....))))))))).......)))))))).))))((((................)))). (-21.19 = -20.19 +  -1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:47 2006