Locus 3397

Sequence ID	3L_DroMel_CAF1
Location	9,972,100 – 9,972,204
Length	104
Max. P	0.861439

overview

Window 3

Location	9,972,100 – 9,972,204
Length	104
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	83.97
Mean single sequence MFE	-34.19
Consensus MFE	-24.74
Energy contribution	-26.02
Covariance contribution	1.28
Combinations/Pair	1.07
Mean z-score	-3.21
Structure conservation index	0.72
SVM decision value	0.83
SVM RNA-class probability	0.861439
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9972100 104 + 23771897
UUAAGUGUCUUUCGUUGGCCUUAAAGCCGCAUUUCUGCGAACGGAUGAGGCUUUAAUGCCCAUUACGGCCAAAUUGGCACUUAUCGAACUGGCGAGAGCCCCAU
.((((((((.....((((((.......((((....))))....((((.(((......)))))))..))))))...)))))))).......(((....))).... ( -38.60)
>DroSec_CAF1 24851 104 + 1
UUAAGUGUCUUUCGUUGGCCUUAAAGCCGCAUUUCUGCGAACGGAUGAGGCUUUAAUGCCCAUUACGGCCAAAUUGGCACUUAUCGAACUGGCGAGAGCCCCAU
.((((((((.....((((((.......((((....))))....((((.(((......)))))))..))))))...)))))))).......(((....))).... ( -38.60)
>DroSim_CAF1 32465 104 + 1
UUAAGUGUCUUUCGUUGGCCUUAAAGCCGCAUUUCUGCGAACGGAUGAGGCUUUAAUGCCCAUUACGGCCAAAUUGGCACUUAUCGAACUGGCGAGAGCCCCAU
.((((((((.....((((((.......((((....))))....((((.(((......)))))))..))))))...)))))))).......(((....))).... ( -38.60)
>DroEre_CAF1 25113 104 + 1
UUAAGUGCCUUUCCUUGGCCUUAAAGCCGCAUUUCUGCGAACGGAUGAGGCUUUAAUGCCCAUUACGGCCAAAUUGGCACUUAUCGAACGGGCGAGAACCCCAU
.((((((((.....((((((.......((((....))))....((((.(((......)))))))..))))))...))))))))......(((.(....)))).. ( -37.70)
>DroYak_CAF1 24969 104 + 1
UUAAGUGUCUUUCGUUGGACUUAAAGCCUCAUUUCUGCGAACGGAUGAGGCUUUAAUGCCCAUUACAGCCAAAUUGGCACUUAUCGAACUGUCGAUAACCCGAU
...........(((.(((.((((((((((((..((((....))))))))))))))).).))).....(((.....)))..(((((((....)))))))..))). ( -31.70)
>DroAna_CAF1 24441 82 + 1
AUAAGUGCCUCCAGCUGGCAUUAAAGUCGCACU----CGAACUCCUA-AACUUUAAUGCCCAUUAUGGCCAAAUAGCCACUUAUCGG-----------------
(((((((.(((((...(((((((((((......----..........-.))))))))))).....)))......)).)))))))...----------------- ( -19.93)
>consensus
UUAAGUGUCUUUCGUUGGCCUUAAAGCCGCAUUUCUGCGAACGGAUGAGGCUUUAAUGCCCAUUACGGCCAAAUUGGCACUUAUCGAACUGGCGAGAGCCCCAU
.((((((((.....((((((((((((((.(((((........))))).))))))))..........))))))...))))))))..................... (-24.74 = -26.02 +   1.28)

alignment

secondary structure

dotplot

Window 4

Location	9,972,100 – 9,972,204
Length	104
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	83.97
Mean single sequence MFE	-34.05
Consensus MFE	-22.18
Energy contribution	-22.50
Covariance contribution	0.32
Combinations/Pair	1.26
Mean z-score	-2.68
Structure conservation index	0.65
SVM decision value	0.19
SVM RNA-class probability	0.627518
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9972100 104 - 23771897
AUGGGGCUCUCGCCAGUUCGAUAAGUGCCAAUUUGGCCGUAAUGGGCAUUAAAGCCUCAUCCGUUCGCAGAAAUGCGGCUUUAAGGCCAACGAAAGACACUUAA
....(((....))).......((((((.....((((((...((((((......))).)))....(((((....)))))......))))))(....).)))))). ( -33.90)
>DroSec_CAF1 24851 104 - 1
AUGGGGCUCUCGCCAGUUCGAUAAGUGCCAAUUUGGCCGUAAUGGGCAUUAAAGCCUCAUCCGUUCGCAGAAAUGCGGCUUUAAGGCCAACGAAAGACACUUAA
....(((....))).......((((((.....((((((...((((((......))).)))....(((((....)))))......))))))(....).)))))). ( -33.90)
>DroSim_CAF1 32465 104 - 1
AUGGGGCUCUCGCCAGUUCGAUAAGUGCCAAUUUGGCCGUAAUGGGCAUUAAAGCCUCAUCCGUUCGCAGAAAUGCGGCUUUAAGGCCAACGAAAGACACUUAA
....(((....))).......((((((.....((((((...((((((......))).)))....(((((....)))))......))))))(....).)))))). ( -33.90)
>DroEre_CAF1 25113 104 - 1
AUGGGGUUCUCGCCCGUUCGAUAAGUGCCAAUUUGGCCGUAAUGGGCAUUAAAGCCUCAUCCGUUCGCAGAAAUGCGGCUUUAAGGCCAAGGAAAGGCACUUAA
...((((....))))......((((((((..(((((((...((((((......))).)))....(((((....)))))......)))))))....)))))))). ( -42.00)
>DroYak_CAF1 24969 104 - 1
AUCGGGUUAUCGACAGUUCGAUAAGUGCCAAUUUGGCUGUAAUGGGCAUUAAAGCCUCAUCCGUUCGCAGAAAUGAGGCUUUAAGUCCAACGAAAGACACUUAA
.((((.(((((((....))))))).)(((.....))).....(((((.(((((((((((((.(....).))..)))))))))))))))).)))........... ( -34.90)
>DroAna_CAF1 24441 82 - 1
-----------------CCGAUAAGUGGCUAUUUGGCCAUAAUGGGCAUUAAAGUU-UAGGAGUUCG----AGUGCGACUUUAAUGCCAGCUGGAGGCACUUAU
-----------------...(((((((.((..(..(((.....)((((((((((((-.....((...----...)))))))))))))).))..))).))))))) ( -25.70)
>consensus
AUGGGGCUCUCGCCAGUUCGAUAAGUGCCAAUUUGGCCGUAAUGGGCAUUAAAGCCUCAUCCGUUCGCAGAAAUGCGGCUUUAAGGCCAACGAAAGACACUUAA
....(((....))).......((((((.(...((((((...((((((......))).)))....(((((....)))))......)))))).....).)))))). (-22.18 = -22.50 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:12 2006