Locus 7152

Sequence ID	3R_DroMel_CAF1
Location	18,847,743 – 18,847,836
Length	93
Max. P	0.722757

overview

Window 1

Location	18,847,743 – 18,847,836
Length	93
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	84.04
Mean single sequence MFE	-21.72
Consensus MFE	-18.26
Energy contribution	-17.85
Covariance contribution	-0.41
Combinations/Pair	1.12
Mean z-score	-1.48
Structure conservation index	0.84
SVM decision value	0.07
SVM RNA-class probability	0.570962
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18847743 93 + 27905053
UCGAUGAUGACAAUGCAAUUUGACAACUCAUUAAAGUUCAUUGAAUUGUUAUUAGCUGCAACACCGG------------UGCCGCAAUUGCUGCGGUCUGUCGUC-
.....(((((((.((((...((((((.(((...........))).)))))).....)))).......------------.((((((.....)))))).)))))))- ( -25.10)
>DroPse_CAF1 93593 91 + 1
UCAAUGAUGACAAUGCAAUUUGACAACUCAUUAAAGUUCAUUGAAUUGUUAUUAGCUGCAACAU---------------UGCCGCAGACAUUGCGGUUUGUCCUGU
........(((((((((...((((((.(((...........))).)))))).....))))....---------------.(((((((...)))))))))))).... ( -21.00)
>DroEre_CAF1 72674 93 + 1
UCGAUGAUGACAAUGCAAUUUGACAACUCAUUAAAGUUCAUUGAAUUGUUAUUAGCUGCAACACCGG------------UGCCGCAAUUGCUGCGGUCUGUCCUC-
....((((((((((.(((..(((..(((......))))))))).))))))))))..........(((------------.((((((.....))))))))).....- ( -21.20)
>DroWil_CAF1 85050 89 + 1
UCAAUAAUGACAAUGCAAUUUGACAACUCAUUAAAGUUCAUUGAAUUGUUAUUAGCUGCAACAU---------------UGCCGCAGUUGUUGUGGUUAGCCAU--
....((((.(((((((((((..(.((((......))))..)..))))))....((((((.....---------------....))))))))))).)))).....-- ( -19.70)
>DroAna_CAF1 76618 102 + 1
UCAAUGAUGACAAUGCAAUUUGACAACUCAUUAAAGUUCAUUGAAUUGUUAUUAGCUGCAACACCACCCGUCGCAAUACGGCUGCAAUCAUUGCGGUCUAUC----
....((((((((((.(((..(((..(((......))))))))).))))))))))..(((.((.......)).)))....(((((((.....)))))))....---- ( -22.30)
>DroPer_CAF1 92739 91 + 1
UCAAUGAUGACAAUGCAAUUUGACAACUCAUUAAAGUUCAUUGAAUUGUUAUUAGCUGCAACAU---------------UGCCGCAGACAUUGCGGUUUGUCCUGU
........(((((((((...((((((.(((...........))).)))))).....))))....---------------.(((((((...)))))))))))).... ( -21.00)
>consensus
UCAAUGAUGACAAUGCAAUUUGACAACUCAUUAAAGUUCAUUGAAUUGUUAUUAGCUGCAACAC_______________UGCCGCAAUCAUUGCGGUCUGUCCU__
....((((((((((.(((..(((..(((......))))))))).))))))))))..........................((((((.....))))))......... (-18.26 = -17.85 +  -0.41)

alignment

secondary structure

dotplot

Window 2

Location	18,847,743 – 18,847,836
Length	93
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	84.04
Mean single sequence MFE	-22.62
Consensus MFE	-19.44
Energy contribution	-18.81
Covariance contribution	-0.64
Combinations/Pair	1.21
Mean z-score	-1.66
Structure conservation index	0.86
SVM decision value	0.40
SVM RNA-class probability	0.722757
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18847743 93 - 27905053
-GACGACAGACCGCAGCAAUUGCGGCA------------CCGGUGUUGCAGCUAAUAACAAUUCAAUGAACUUUAAUGAGUUGUCAAAUUGCAUUGUCAUCAUCGA
-((.(((((...((((((....((...------------.)).)))))).((.....((((((((.(((...))).))))))))......)).))))).))..... ( -24.10)
>DroPse_CAF1 93593 91 - 1
ACAGGACAAACCGCAAUGUCUGCGGCA---------------AUGUUGCAGCUAAUAACAAUUCAAUGAACUUUAAUGAGUUGUCAAAUUGCAUUGUCAUCAUUGA
....(((((...((((((.(((((((.---------------..)))))))).....((((((((.(((...))).))))))))...))))).)))))........ ( -22.40)
>DroEre_CAF1 72674 93 - 1
-GAGGACAGACCGCAGCAAUUGCGGCA------------CCGGUGUUGCAGCUAAUAACAAUUCAAUGAACUUUAAUGAGUUGUCAAAUUGCAUUGUCAUCAUCGA
-((.(((((...((((((....((...------------.)).)))))).((.....((((((((.(((...))).))))))))......)).))))).))..... ( -24.10)
>DroWil_CAF1 85050 89 - 1
--AUGGCUAACCACAACAACUGCGGCA---------------AUGUUGCAGCUAAUAACAAUUCAAUGAACUUUAAUGAGUUGUCAAAUUGCAUUGUCAUUAUUGA
--.(((....)))...((((((((((.---------------..))))))).((((.(((((.((((.(((((....))))).....)))).))))).))))))). ( -17.20)
>DroAna_CAF1 76618 102 - 1
----GAUAGACCGCAAUGAUUGCAGCCGUAUUGCGACGGGUGGUGUUGCAGCUAAUAACAAUUCAAUGAACUUUAAUGAGUUGUCAAAUUGCAUUGUCAUCAUUGA
----.........(((((((.((((......(((((((.....)))))))((.....((((((((.(((...))).))))))))......)).)))).))))))). ( -25.50)
>DroPer_CAF1 92739 91 - 1
ACAGGACAAACCGCAAUGUCUGCGGCA---------------AUGUUGCAGCUAAUAACAAUUCAAUGAACUUUAAUGAGUUGUCAAAUUGCAUUGUCAUCAUUGA
....(((((...((((((.(((((((.---------------..)))))))).....((((((((.(((...))).))))))))...))))).)))))........ ( -22.40)
>consensus
__AGGACAAACCGCAACAACUGCGGCA_______________AUGUUGCAGCUAAUAACAAUUCAAUGAACUUUAAUGAGUUGUCAAAUUGCAUUGUCAUCAUUGA
....(((((...((((...((((((((................))))))))......((((((((.(((...))).))))))))....)))).)))))........ (-19.44 = -18.81 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:43 2006