Locus 766

Sequence ID	X_DroMel_CAF1
Location	2,109,884 – 2,109,984
Length	100
Max. P	0.819596

overview

Window 4

Location	2,109,884 – 2,109,984
Length	100
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	85.31
Mean single sequence MFE	-32.58
Consensus MFE	-22.84
Energy contribution	-24.60
Covariance contribution	1.76
Combinations/Pair	1.16
Mean z-score	-1.77
Structure conservation index	0.70
SVM decision value	0.18
SVM RNA-class probability	0.620141
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2109884 100 + 22224390
UGUGCAUAUGGCACUAGCUAAGUGCAUGUCAGU---CCAACUUCAGCAAGGAGGAAGUGCCUUGCUAUCACUGGAGGUGCCUAAUGCACUUGACCUUUGGCAC----
.((((((..((((((.((.....)).......(---(((.....(((((((........))))))).....))))))))))..))))))..............---- ( -34.60)
>DroSec_CAF1 3404 100 + 1
UGUGCAUAUGGCACUAGCUAAGUGCAUGUCAGU---CCAACUUCAGCAAGGAGGAAGUGCCUUGCUAUCACUGGAGGUGCCUAAUGCACUUGACCUUUGGCAC----
.((((((..((((((.((.....)).......(---(((.....(((((((........))))))).....))))))))))..))))))..............---- ( -34.60)
>DroSim_CAF1 2048 100 + 1
UGUGCAUAUGGCACUAGCUAAGUGCAUGUCAGU---CCAACUUCAGCAAGGAGGAAGUGCCUUGCUAUCACUGGAGGUGCCUAAUGCACUUGACCUUUGGCAC----
.((((((..((((((.((.....)).......(---(((.....(((((((........))))))).....))))))))))..))))))..............---- ( -34.60)
>DroEre_CAF1 3465 100 + 1
UGUGCAUAUAACACCAGCUGAGUGCAUGUCAGG---CCAACUUCUGCAAGGAGGAGCUGCAUUCAUAUCACUGGAGGUGGCUAGUGCACUUGACCUUUGGCAC----
.((((((....((((...((((((((.((....---((..(((....)))..)).))))))))))..((....))))))....))))))..............---- ( -27.50)
>DroYak_CAF1 3327 101 + 1
UGUACACAUAGCACUGGCUAAGCGAAUGCCAGGUGCCAAACAUCUGCAAGUA------GCUUUCAUAUCACUGGAGGUGCCUAAUGCACUUGACCUUUGGCACUUGA
....(.(.((((....)))).).).....(((((((((((((..((((((..------(((((((......)))))))..))..))))..))...))))))))))). ( -31.60)
>consensus
UGUGCAUAUGGCACUAGCUAAGUGCAUGUCAGU___CCAACUUCAGCAAGGAGGAAGUGCCUUGCUAUCACUGGAGGUGCCUAAUGCACUUGACCUUUGGCAC____
.((((((.((((....)))).))))))(((((....(((.....(((((((........))))))).....)))((((((.....)))))).....)))))...... (-22.84 = -24.60 +   1.76)

alignment

secondary structure

dotplot

Window 5

Location	2,109,884 – 2,109,984
Length	100
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	85.31
Mean single sequence MFE	-32.71
Consensus MFE	-23.08
Energy contribution	-24.44
Covariance contribution	1.36
Combinations/Pair	1.19
Mean z-score	-2.12
Structure conservation index	0.71
SVM decision value	0.68
SVM RNA-class probability	0.819596
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2109884 100 - 22224390
----GUGCCAAAGGUCAAGUGCAUUAGGCACCUCCAGUGAUAGCAAGGCACUUCCUCCUUGCUGAAGUUGG---ACUGACAUGCACUUAGCUAGUGCCAUAUGCACA
----((((.....((((.((((.....)))).((((((..((((((((........))))))))..)))))---).))))..(((((.....))))).....)))). ( -35.40)
>DroSec_CAF1 3404 100 - 1
----GUGCCAAAGGUCAAGUGCAUUAGGCACCUCCAGUGAUAGCAAGGCACUUCCUCCUUGCUGAAGUUGG---ACUGACAUGCACUUAGCUAGUGCCAUAUGCACA
----((((.....((((.((((.....)))).((((((..((((((((........))))))))..)))))---).))))..(((((.....))))).....)))). ( -35.40)
>DroSim_CAF1 2048 100 - 1
----GUGCCAAAGGUCAAGUGCAUUAGGCACCUCCAGUGAUAGCAAGGCACUUCCUCCUUGCUGAAGUUGG---ACUGACAUGCACUUAGCUAGUGCCAUAUGCACA
----((((.....((((.((((.....)))).((((((..((((((((........))))))))..)))))---).))))..(((((.....))))).....)))). ( -35.40)
>DroEre_CAF1 3465 100 - 1
----GUGCCAAAGGUCAAGUGCACUAGCCACCUCCAGUGAUAUGAAUGCAGCUCCUCCUUGCAGAAGUUGG---CCUGACAUGCACUCAGCUGGUGUUAUAUGCACA
----((((............(((((((((((.....)))...(((.((((((........))....(((..---...))).)))).))))))))))).....)))). ( -25.43)
>DroYak_CAF1 3327 101 - 1
UCAAGUGCCAAAGGUCAAGUGCAUUAGGCACCUCCAGUGAUAUGAAAGC------UACUUGCAGAUGUUUGGCACCUGGCAUUCGCUUAGCCAGUGCUAUGUGUACA
....((((((((.(((..((((.....))))................((------.....)).))).)))))))).((((.........))))((((.....)))). ( -31.90)
>consensus
____GUGCCAAAGGUCAAGUGCAUUAGGCACCUCCAGUGAUAGCAAGGCACUUCCUCCUUGCUGAAGUUGG___ACUGACAUGCACUUAGCUAGUGCCAUAUGCACA
..................((((((..(((((....((((.((((((((........))))))))..((..(....)..))...))))......)))))..)))))). (-23.08 = -24.44 +   1.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:20 2006