Locus 2256

Sequence ID	2L_DroMel_CAF1
Location	6,136,995 – 6,137,113
Length	118
Max. P	0.985257

overview

Window 7

Location	6,136,995 – 6,137,113
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.36
Mean single sequence MFE	-34.70
Consensus MFE	-27.80
Energy contribution	-28.04
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-3.18
Structure conservation index	0.80
SVM decision value	2.00
SVM RNA-class probability	0.985257
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6136995 118 + 22407834
-UCCGGCAAGUCAUCAAGCAAAUCGCGAGCAUCUGCCGUUUAUUUUUACAUUUCACGCUCGCUGCUG-GCUGCAUUACUUUGUAAUUAAUGCGGCAAAUGGUUUGUUUGCAUAUUGAUUA
-.......(((((.((((((((((((((((.......((........)).......)))))).....-(((((((((.........)))))))))....)))))))))).....))))). ( -33.94)
>DroSec_CAF1 5502 115 + 1
CUCCGGCAAGUCAUCAAGCAAAUCGCGAGCAUCUGCCGUUUAUUUUUACAUUUCACGCUCGCUGC-----UGCAUUACUUUGUAAUUAAUGCGGCAAAUGGUUUGUUUGCAUAUUGAUUA
........(((((.((((((((((((((((.......((........)).......))))))(((-----(((((((.........))))))))))...)))))))))).....))))). ( -34.74)
>DroSim_CAF1 5647 115 + 1
CUCCGGCAAGUCAUCAAGCAAAUCGCGAGCAUCUGCCGUUUAUUUUUACAUUUCACGCUCGCUGC-----UGCAUUACUUUGUAAUUAAUGCGGCAAAUGGUUUGUUUGCAUAUUGAUUA
........(((((.((((((((((((((((.......((........)).......))))))(((-----(((((((.........))))))))))...)))))))))).....))))). ( -34.74)
>DroEre_CAF1 5886 114 + 1
-UCCGGCAAGUCAUCAAGCAAAUCGCGAGCAUCUGCCGUUUAUUUUUACAUUUCACGCUCGCUG-----CUGCAUUACUUUGUAAUUAAUGCGGCAAAUGGUUUGUUUGCAUAUUGAUUA
-.......(((((.((((((((((((((((.......((........)).......))))))((-----((((((((.........))))))))))...)))))))))).....))))). ( -34.74)
>DroYak_CAF1 5892 119 + 1
-UCCGGCAAGUCAUCAGGCAAAUCGCGAGCAUCUGCCGUUUAUUUUUACAUUUCACGCUCGCUGCCGCGCUGCAUUACUUUGUAAUUAAUGCGGCAAAUGGUUUGUUUGCAUAUUGAUUA
-.......(((((.((((((((((((((((.......((........)).......))))))(((((((.((.(((((...))))))).)))))))...)))))))))).....))))). ( -35.34)
>consensus
_UCCGGCAAGUCAUCAAGCAAAUCGCGAGCAUCUGCCGUUUAUUUUUACAUUUCACGCUCGCUGC____CUGCAUUACUUUGUAAUUAAUGCGGCAAAUGGUUUGUUUGCAUAUUGAUUA
........(((((.((((((((((((((((.......((........)).......)))))).......((((((((.........)))))))).....)))))))))).....))))). (-27.80 = -28.04 +   0.24)

alignment

secondary structure

dotplot

Window 8

Location	6,136,995 – 6,137,113
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.36
Mean single sequence MFE	-29.40
Consensus MFE	-25.10
Energy contribution	-25.10
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.82
Structure conservation index	0.85
SVM decision value	1.27
SVM RNA-class probability	0.938837
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6136995 118 - 22407834
UAAUCAAUAUGCAAACAAACCAUUUGCCGCAUUAAUUACAAAGUAAUGCAGC-CAGCAGCGAGCGUGAAAUGUAAAAAUAAACGGCAGAUGCUCGCGAUUUGCUUGAUGACUUGCCGGA-
..(((((...((((((.........((.((((((.........)))))).))-.....((((((((....(((........)))....))))))))).))))))))))...........- ( -27.20)
>DroSec_CAF1 5502 115 - 1
UAAUCAAUAUGCAAACAAACCAUUUGCCGCAUUAAUUACAAAGUAAUGCA-----GCAGCGAGCGUGAAAUGUAAAAAUAAACGGCAGAUGCUCGCGAUUUGCUUGAUGACUUGCCGGAG
..(((((...((((((........(((.((((((.........)))))).-----)))((((((((....(((........)))....))))))))).))))))))))............ ( -29.00)
>DroSim_CAF1 5647 115 - 1
UAAUCAAUAUGCAAACAAACCAUUUGCCGCAUUAAUUACAAAGUAAUGCA-----GCAGCGAGCGUGAAAUGUAAAAAUAAACGGCAGAUGCUCGCGAUUUGCUUGAUGACUUGCCGGAG
..(((((...((((((........(((.((((((.........)))))).-----)))((((((((....(((........)))....))))))))).))))))))))............ ( -29.00)
>DroEre_CAF1 5886 114 - 1
UAAUCAAUAUGCAAACAAACCAUUUGCCGCAUUAAUUACAAAGUAAUGCAG-----CAGCGAGCGUGAAAUGUAAAAAUAAACGGCAGAUGCUCGCGAUUUGCUUGAUGACUUGCCGGA-
..(((((...((((((........(((.((((((.........)))))).)-----))((((((((....(((........)))....))))))))).))))))))))...........- ( -29.00)
>DroYak_CAF1 5892 119 - 1
UAAUCAAUAUGCAAACAAACCAUUUGCCGCAUUAAUUACAAAGUAAUGCAGCGCGGCAGCGAGCGUGAAAUGUAAAAAUAAACGGCAGAUGCUCGCGAUUUGCCUGAUGACUUGCCGGA-
...(((.((.((((((........((((((....(((((...))))).....))))))((((((((....(((........)))....))))))))).))))).)).))).........- ( -32.80)
>consensus
UAAUCAAUAUGCAAACAAACCAUUUGCCGCAUUAAUUACAAAGUAAUGCAG____GCAGCGAGCGUGAAAUGUAAAAAUAAACGGCAGAUGCUCGCGAUUUGCUUGAUGACUUGCCGGA_
...(((.((.((((((............((((((.........)))))).........((((((((....(((........)))....))))))))).))))).)).))).......... (-25.10 = -25.10 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:14 2006