Locus 5575

Sequence ID 2R_DroMel_CAF1
Location 17,831,820 – 17,831,923
Length 103
Max. P 0.645935
window8931

overview

Window 1

Location 17,831,820 – 17,831,923
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.70
Mean single sequence MFE -35.37
Consensus MFE -18.53
Energy contribution -19.50
Covariance contribution 0.97
Combinations/Pair 1.08
Mean z-score -2.90
Structure conservation index 0.52
SVM decision value 0.23
SVM RNA-class probability 0.645935
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17831820 103 + 20766785
UAUGUGUUUGCUUUGCCAUGAAAACGAAGGCAAAC--ACAGGCGGUCUUUCAAUAGGGCCAUCCGCC---AUGGAAUCCGCAUCGAAUGGG---------U---GGAAAAUGCAUUCCAA
..((((((((((((............)))))))))--))).((((..(((((....(((.....)))---.))))).))))...(((((.(---------(---.....)).)))))... ( -33.10)
>DroSec_CAF1 99809 103 + 1
UAUGUGUUUGCCUUGCCAUGAAAACGAAGGCAAAC--ACAGGCGGUCUUUCAAUAGGGCCAUCCGCC---AUGGAAUCCGCAUCGAAUGGU---------U---GGAAUAUGCAUUCCAA
..((((((((((((............)))))))))--))).((((..(((((....(((.....)))---.))))).)))).........(---------(---(((((....))))))) ( -35.10)
>DroSim_CAF1 99134 103 + 1
UAUGUGUUUGCCUUGCCAUGAAUACGAAGGCAAAC--ACAGGCGGUCUUUCAAUAGGGCCAUCCGCC---AUGGAAUCCGCAUCGAAUGGU---------U---GGAAAAUGCAUUCCAA
..((((((((((((............)))))))))--))).((((..(((((....(((.....)))---.))))).))))...(((((((---------(---....))).)))))... ( -34.90)
>DroEre_CAF1 100331 102 + 1
UAUGUGUUUGCUUUGCCAUGAAAACGA-GGCAAAC--ACAGGCGGCCUUUCAAUAGGGCCAUCCGCC---AGGGAAACCGCAUCGAAUGGU---------U---GGAAAACGCAUUCCAA
..(((((((((((((.........)))-)))))))--)))(((((((((.....))))))....)))---.((....)).....(((((((---------(---....))).)))))... ( -42.00)
>DroYak_CAF1 104278 105 + 1
UAUGUGUUUGCUUUGCCAUGAAAACGAAGGCAAACACACAGGCGGUCUUUCUAUAGGGCCAUCCGCC---AUGGAAUCCGCAUCGAAUGCU---------U---GGAAAAUGCAUUCCAA
..((((((((((((............))))))))))))...((((...((((((..(((.....)))---)))))).))))...(((((((---------(---....)).))))))... ( -36.30)
>DroPer_CAF1 111600 113 + 1
UA----UUUGCUUUGCCAUGAAAACGCUGGCAAAC--AGAGGCGA-GUUCCAGAACGGCUCCAAGCCAAGACGGAAUCCACACCGAAUCGAAGCACUUCAUGGAGAAAAUCGCAUUGGAA
..----((((.(((((((((....)).))))))))--))).((((-.(((((((..(((.....)))....(((........)))..))(((....))).)))))....))))....... ( -30.80)
>consensus
UAUGUGUUUGCUUUGCCAUGAAAACGAAGGCAAAC__ACAGGCGGUCUUUCAAUAGGGCCAUCCGCC___AUGGAAUCCGCAUCGAAUGGU_________U___GGAAAAUGCAUUCCAA
.....(((((((((............)))))))))......((((..((((.....(((.....))).....)))).)))).......................((((......)))).. (-18.53 = -19.50 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:59 2006