Locus 7943

Sequence ID	X_DroMel_CAF1
Location	19,818,983 – 19,819,103
Length	120
Max. P	0.858891

overview

Window 4

Location	19,818,983 – 19,819,103
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.12
Mean single sequence MFE	-28.04
Consensus MFE	-14.31
Energy contribution	-14.97
Covariance contribution	0.66
Combinations/Pair	1.19
Mean z-score	-1.83
Structure conservation index	0.51
SVM decision value	-0.08
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19818983 120 + 22224390
CGGGUAAGUUGACCGGAAGUGAUUAUCUACCAAAAUCGGUGCUUAGACAUGGUCAACUAAUAAGCCUAGUGUAUGCUGGUGUAUUUUGUAUAAUUAACCAGCAUCUUUGCACCAUUUAAU
.((((.((((((((....(((.(((..((((......))))..))).))))))))))).....)))).((((((((((((.(((.....)))....))))))))....))))........ ( -34.20)
>DroSec_CAF1 24860 108 + 1
UGGUUAAGUUGACCGGAAGUGAUUAUCUACCAAAAUCGGUGCUUA----------AGUAAUAAGCCUAA--UAUGCCGGUGUAUUUUGGAUAAUUAACCAGCAUCUUUGCUCCAUUAAAU
.((((.....))))(((..((((((((((.....(((((((((((----------.....)))))....--...))))))......))))))))))....(((....))))))....... ( -27.01)
>DroSim_CAF1 21618 108 + 1
UGGUUAAGUUGACCGGAAGUGAUUAUCUACCAAAAUCGGUGCUUA----------AGUAAUAAGCCUAA--UAUGCCGGUGUAUUUUGGAUAAUUAACCAGCAUCUUUGCUCCAUUAAAU
.((((.....))))(((..((((((((((.....(((((((((((----------.....)))))....--...))))))......))))))))))....(((....))))))....... ( -27.01)
>DroEre_CAF1 15233 101 + 1
UAGGUAAAUUGACCAAAAG-----------------UGGUGCUUCGACUUGGUCACGCAAUAAGCCUAA--UAUGCUGGUGUAUUUUGGACAAAUAACCAGCAUCUUUGCACAAUUUAAU
....(((((((((((..((-----------------(.(.....).)))))))).........((..((--.((((((((.(((((.....))))))))))))).)).))..)))))).. ( -25.10)
>DroYak_CAF1 15690 118 + 1
UGGGUGAGUUGACCGAAAGUGAUUAUUUAACAAAAUUGGUGCUUAGACGUGGUCAAGUAAUAAGCCUAU--UAUGCUGGUGUAUUUUGGACAAUUAACCAGCAUCUUUGCACCGUUUAAU
((..(((((...((....).)...))))).)).....(((((..(((...(((..(....)..)))...--..(((((((................))))))))))..)))))....... ( -26.89)
>consensus
UGGGUAAGUUGACCGGAAGUGAUUAUCUACCAAAAUCGGUGCUUAGAC_UGGUCAAGUAAUAAGCCUAA__UAUGCUGGUGUAUUUUGGAUAAUUAACCAGCAUCUUUGCACCAUUUAAU
.(((((((...(((((...((.........))...)))))(((((...............))))).......((((((((................)))))))).))))).))....... (-14.31 = -14.97 +   0.66)

alignment

secondary structure

dotplot

Window 5

Location	19,818,983 – 19,819,103
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	79.12
Mean single sequence MFE	-24.97
Consensus MFE	-15.04
Energy contribution	-15.56
Covariance contribution	0.52
Combinations/Pair	1.08
Mean z-score	-2.03
Structure conservation index	0.60
SVM decision value	0.82
SVM RNA-class probability	0.858891
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19818983 120 - 22224390
AUUAAAUGGUGCAAAGAUGCUGGUUAAUUAUACAAAAUACACCAGCAUACACUAGGCUUAUUAGUUGACCAUGUCUAAGCACCGAUUUUGGUAGAUAAUCACUUCCGGUCAACUUACCCG
......(((((.....((((((((..(((......)))..)))))))).)))))((......((((((((..........((((....)))).((........)).))))))))...)). ( -29.30)
>DroSec_CAF1 24860 108 - 1
AUUUAAUGGAGCAAAGAUGCUGGUUAAUUAUCCAAAAUACACCGGCAUA--UUAGGCUUAUUACU----------UAAGCACCGAUUUUGGUAGAUAAUCACUUCCGGUCAACUUAACCA
.......((((((....)))((((((.(((.(((((((....(((....--....(((((.....----------))))).))))))))))))).))))))..)))(((.......))). ( -22.30)
>DroSim_CAF1 21618 108 - 1
AUUUAAUGGAGCAAAGAUGCUGGUUAAUUAUCCAAAAUACACCGGCAUA--UUAGGCUUAUUACU----------UAAGCACCGAUUUUGGUAGAUAAUCACUUCCGGUCAACUUAACCA
.......((((((....)))((((((.(((.(((((((....(((....--....(((((.....----------))))).))))))))))))).))))))..)))(((.......))). ( -22.30)
>DroEre_CAF1 15233 101 - 1
AUUAAAUUGUGCAAAGAUGCUGGUUAUUUGUCCAAAAUACACCAGCAUA--UUAGGCUUAUUGCGUGACCAAGUCGAAGCACCA-----------------CUUUUGGUCAAUUUACCUA
..(((((((.((....(((((((((((((.....))))).)))))))).--(((.((.....)).)))..........))((((-----------------....))))))))))).... ( -25.40)
>DroYak_CAF1 15690 118 - 1
AUUAAACGGUGCAAAGAUGCUGGUUAAUUGUCCAAAAUACACCAGCAUA--AUAGGCUUAUUACUUGACCACGUCUAAGCACCAAUUUUGUUAAAUAAUCACUUUCGGUCAACUCACCCA
.......(((((....((((((((..(((......)))..)))))))).--.(((((...............))))).))))).......................(((......))).. ( -25.56)
>consensus
AUUAAAUGGUGCAAAGAUGCUGGUUAAUUAUCCAAAAUACACCAGCAUA__UUAGGCUUAUUACUUGACCA_GUCUAAGCACCGAUUUUGGUAGAUAAUCACUUCCGGUCAACUUACCCA
.......((.((....((((((((..(((......)))..)))))))).......)).....................(.((((....((((.....))))....))))).......)). (-15.04 = -15.56 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:25 2006