Locus 7459

Sequence ID	3R_DroMel_CAF1
Location	19,907,023 – 19,907,115
Length	92
Max. P	0.757748

overview

Window 0

Location	19,907,023 – 19,907,115
Length	92
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	73.28
Mean single sequence MFE	-16.04
Consensus MFE	-4.50
Energy contribution	-4.34
Covariance contribution	-0.16
Combinations/Pair	1.14
Mean z-score	-1.80
Structure conservation index	0.28
SVM decision value	0.49
SVM RNA-class probability	0.757748
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19907023 92 + 27905053
AUUGUGAUAUUUUACUACUUGGGUA-------AUAUGUACCACCAUAUGUAAU--AUAAAAAAUGUUUAGCACACAUUAAACAAACGCAAACAUUUCACGC
...(((((((.((((......((((-------.....)))).......)))).--)))...(((((((.((...............))))))))))))).. ( -14.28)
>DroSec_CAF1 20275 92 + 1
UAUAUGAUAUUUUACUACUUGUGAA-------UUAUGUACCACCCUAUGUAAU--AUCAUAAAUGUUUAGCAAAUAUUAAACAAGCGCAAACAUUUCACGC
..(((((((.(((((.....)))))-------(((((((......))))))))--))))))(((((((.((.............))..)))))))...... ( -13.72)
>DroSim_CAF1 21285 92 + 1
UAUAUGAUAUUUUACUACUUGUGUA-------UUAUGUACCACCCUAUGUAAU--AUCAGAAAUGUUUAGCAAAUAUUAAACAAGCGCAAACAUUUCACGC
....(((((((........((.(((-------(...))))))........)))--))))(((((((((.((.............))..))))))))).... ( -16.11)
>DroYak_CAF1 20947 95 + 1
UAUGUAAUAUUUACCUAUGUAUGUAUGUACAUUUAUGUAC----CUAUAUAAU--AUAACAAAUGUUUAGCAACUGCUAAACAAGCGCAAACAUUUCACGC
..(((..........((((((((((.(((((....)))))----.))))).))--))).....((((((((....))))))))...)))............ ( -19.70)
>DroAna_CAF1 21172 94 + 1
AACAUCACAUUCAACUAUAUA-GUACGUGCUC--AUGCUU----AUUUGUAGUGCGUUCCGAAUGUUUAGCAAUUGUUAAACAAGCACAAACAUUUCACGG
.....................-...((((...--.(((..----....)))((((........((((((((....)))))))).))))........)))). ( -16.40)
>consensus
UAUAUGAUAUUUUACUACUUGUGUA_______UUAUGUACCACCCUAUGUAAU__AUAACAAAUGUUUAGCAAAUAUUAAACAAGCGCAAACAUUUCACGC
...............................................................(((((((......))))))).................. ( -4.50 =  -4.34 +  -0.16)

alignment

secondary structure

dotplot

Window 1

Location	19,907,023 – 19,907,115
Length	92
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	73.28
Mean single sequence MFE	-20.17
Consensus MFE	-7.24
Energy contribution	-6.72
Covariance contribution	-0.52
Combinations/Pair	1.29
Mean z-score	-1.82
Structure conservation index	0.36
SVM decision value	0.41
SVM RNA-class probability	0.726935
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19907023 92 - 27905053
GCGUGAAAUGUUUGCGUUUGUUUAAUGUGUGCUAAACAUUUUUUAU--AUUACAUAUGGUGGUACAUAU-------UACCCAAGUAGUAAAAUAUCACAAU
..((((....(((((..(((..((((((((((((..(((.......--.......))).))))))))))-------))..)))...)))))...))))... ( -22.74)
>DroSec_CAF1 20275 92 - 1
GCGUGAAAUGUUUGCGCUUGUUUAAUAUUUGCUAAACAUUUAUGAU--AUUACAUAGGGUGGUACAUAA-------UUCACAAGUAGUAAAAUAUCAUAUA
..((((....(((((((((((..(.(((.(((((....((((((..--....)))))).))))).))).-------)..)))))).)))))...))))... ( -18.60)
>DroSim_CAF1 21285 92 - 1
GCGUGAAAUGUUUGCGCUUGUUUAAUAUUUGCUAAACAUUUCUGAU--AUUACAUAGGGUGGUACAUAA-------UACACAAGUAGUAAAAUAUCAUAUA
....((((((((((.((..((.....))..))))))))))))((((--(((((.....(((........-------..))).....)))..)))))).... ( -18.30)
>DroYak_CAF1 20947 95 - 1
GCGUGAAAUGUUUGCGCUUGUUUAGCAGUUGCUAAACAUUUGUUAU--AUUAUAUAG----GUACAUAAAUGUACAUACAUACAUAGGUAAAUAUUACAUA
..(((.(((((((((((.((((((((....))))))))...))...--.........----(((((....)))))............))))))))).))). ( -23.40)
>DroAna_CAF1 21172 94 - 1
CCGUGAAAUGUUUGUGCUUGUUUAACAAUUGCUAAACAUUCGGAACGCACUACAAAU----AAGCAU--GAGCACGUAC-UAUAUAGUUGAAUGUGAUGUU
..(((...((((..(((((((((......(((....(....)....)))....))))----))))).--.))))..)))-..................... ( -17.80)
>consensus
GCGUGAAAUGUUUGCGCUUGUUUAAUAUUUGCUAAACAUUUGUGAU__AUUACAUAGGGUGGUACAUAA_______UACACAAGUAGUAAAAUAUCAUAUA
.....(((((((((((..(((...)))..))).))))))))............................................................ ( -7.24 =  -6.72 +  -0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:35 2006