Locus 7320

Sequence ID 3R_DroMel_CAF1
Location 19,342,922 – 19,343,012
Length 90
Max. P 0.742981
window11842

overview

Window 2

Location 19,342,922 – 19,343,012
Length 90
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 81.13
Mean single sequence MFE -19.37
Consensus MFE -14.30
Energy contribution -14.88
Covariance contribution 0.59
Combinations/Pair 1.12
Mean z-score -1.60
Structure conservation index 0.74
SVM decision value 0.45
SVM RNA-class probability 0.742981
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19342922 90 + 27905053
--GCCAAUUACCUUAACCC-----CACAUUGACACUCGCA----CU--ACUCGAUUAAUUGGCAUUGUGCCGAUUGCAUUAAUGCCGGCUAAUCAAAUUUAGA
--.................-----................----..--....(((((.((((((((((((.....))).))))))))).)))))......... ( -18.00)
>DroVir_CAF1 153637 95 + 1
--A-CAAUUAAGUAAACU-UGAACCCCAUUGGCACUUGGA----GCUCGGGCGAUUAAUUGACAUUGUGCUGGUUCCAUAAAUAACGACUAAUCGAAUUUAAC
--.-...(((((....))-)))..............((((----(((.(.(((((........))))).).))))))).......(((....)))........ ( -17.10)
>DroSim_CAF1 139652 90 + 1
--GCCAAUUACCUUAACCC-----CACAUUGACACUCGCA----CU--ACUCGAUUAAUUGGCAUUGUGCCGAUUGCAUUAAUGCCGGCUAAUCAAAUUUGGA
--.((((............-----......(.....)...----..--....(((((.((((((((((((.....))).))))))))).)))))....)))). ( -19.50)
>DroEre_CAF1 141142 90 + 1
--GCCAAUUACCUUAACCC-----CACAUUGACACUCGCA----CA--UGUCGAUUAAUUGGCAUUGUGCCGAUUGCAUUUAUGUCGGCUAAUCAAAUUUAGA
--((((((((.........-----...(((((((......----..--))))))))))))))).(((.((((((.........))))))....)))....... ( -22.60)
>DroYak_CAF1 144151 90 + 1
--GCCAAUUACCUUAACCC-----CACAUUGACACUCGCA----CA--AGUCGAUUAAUUGGCAUUGUGCCGAUUGCAUUAAUGCCGGCUAAUCAAAUUUAGA
--(((..............-----...((((((.......----..--.)))))).....((((((((((.....))).)))))))))).............. ( -20.40)
>DroAna_CAF1 142356 95 + 1
UAACCAAUAACCUUAACCC-----CAUAUUGACACUUGCAGCGCCA--AGCCGAUUAAUUGGCAUUGUGCCGAUUGCAUUAAUGCCCGCUAAUCGAAUUAAA-
....(((((..........-----..)))))...((((......))--)).((((((...((((((((((.....))).)))))))...)))))).......- ( -18.60)
>consensus
__GCCAAUUACCUUAACCC_____CACAUUGACACUCGCA____CA__AGUCGAUUAAUUGGCAUUGUGCCGAUUGCAUUAAUGCCGGCUAAUCAAAUUUAGA
....................................................(((((.((((((((((((.....)))).)))))))).)))))......... (-14.30 = -14.88 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:04 2006