Locus 5020

Sequence ID	2L_DroMel_CAF1
Location	14,408,157 – 14,408,316
Length	159
Max. P	0.971144

overview

Window 0

Location	14,408,157 – 14,408,276
Length	119
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	80.39
Mean single sequence MFE	-29.16
Consensus MFE	-21.56
Energy contribution	-23.50
Covariance contribution	1.94
Combinations/Pair	1.19
Mean z-score	-2.26
Structure conservation index	0.74
SVM decision value	1.67
SVM RNA-class probability	0.971144
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14408157 119 - 22407834
AUGGACUUAGCGCUUAUCGCCUAAUACAGCUCAGUGAUUAUUGCGAUUUCUUUUUCAGUGAGUUGGUUUAGCUAUCUAAUAUGGGAUAAAAUAUUAAUUGAAAGGGAUAGGUAUCUGAU
......((((.(((((((.(((....(((((((.(((.................))).))))))).......(((((......)))))..............))))))))))..)))). ( -27.43)
>DroSec_CAF1 29235 119 - 1
AUGGACUUAACGCUUAUCGCCUAAUACAGCUCAUUGAUUAAUGCGAUUUAUUUUUCAGUGAGCUGGUUUAGCUGUCUAAUAUUGGAUAAAAUAUGAAUAGAAAGGGUUAGGUAUCUGAU
....(((((((.(((.((((.(((..(((((((((((..((((.....))))..)))))))))))..)))))((((((....))))))...........))))).)))))))....... ( -36.50)
>DroSim_CAF1 28093 119 - 1
AUGGACUUAACGCUUAUCGCCUAAUACAGCUCAUUGAUUAAUGCGAUUUAUUUUUCAGUGAGCUGGUUUAGCUGUCUAAUAUAAGAUAAAAUAUUGGUUGAAAGGGAUAGGUAUCUGAU
...........(((((((.(((....(((((((((((..((((.....))))..))))))))))).(((((((((((......))))........)))))))))))))))))....... ( -34.80)
>DroEre_CAF1 29424 100 - 1
-------------UUAUCGCUUAAUACAGCUCAUUGAUUAAUGCGAUUGGUUUUUUAGUAAGCUUGUUUAGCUGUCUAAUAUGGGAAUUAAUAAUAAUUGAA-UUGGU-----UCUGCG
-------------..((((((((((.(((....)))))))).))))).......((((..((((.....))))..))))....(((((((((.........)-)))))-----)))... ( -17.90)
>consensus
AUGGACUUAACGCUUAUCGCCUAAUACAGCUCAUUGAUUAAUGCGAUUUAUUUUUCAGUGAGCUGGUUUAGCUGUCUAAUAUGGGAUAAAAUAUUAAUUGAAAGGGAUAGGUAUCUGAU
...........(((((((((.(((..(((((((((((..((((.....))))..)))))))))))..)))))(((((......))))).................)))))))....... (-21.56 = -23.50 +   1.94)

alignment

secondary structure

dotplot

Window 1

Location	14,408,196 – 14,408,316
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.11
Mean single sequence MFE	-27.71
Consensus MFE	-25.47
Energy contribution	-26.03
Covariance contribution	0.56
Combinations/Pair	1.06
Mean z-score	-1.76
Structure conservation index	0.92
SVM decision value	0.18
SVM RNA-class probability	0.619795
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14408196 120 - 22407834
AAGGUAUUUUAUUCGGCAAUCAGAAAUUUAUUGCGUUUAUAUGGACUUAGCGCUUAUCGCCUAAUACAGCUCAGUGAUUAUUGCGAUUUCUUUUUCAGUGAGUUGGUUUAGCUAUCUAAU
.(((((.........(((((.(....)..))))).......(((((((((.((.....))))))..(((((((.(((.................))).))))))))))))..)))))... ( -23.33)
>DroSec_CAF1 29274 120 - 1
AAGGUAUUUUAUUUGGCAAUCAGAAAUUUAUUGCGUUUAUAUGGACUUAACGCUUAUCGCCUAAUACAGCUCAUUGAUUAAUGCGAUUUAUUUUUCAGUGAGCUGGUUUAGCUGUCUAAU
...............(((((.(....)..))))).......(((((.....((.....))((((..(((((((((((..((((.....))))..)))))))))))..))))..))))).. ( -29.90)
>DroSim_CAF1 28132 120 - 1
AAGGUAUUUUAUUUGGCAAUCAGAAAUUUAUUGCGUUUAUAUGGACUUAACGCUUAUCGCCUAAUACAGCUCAUUGAUUAAUGCGAUUUAUUUUUCAGUGAGCUGGUUUAGCUGUCUAAU
...............(((((.(....)..))))).......(((((.....((.....))((((..(((((((((((..((((.....))))..)))))))))))..))))..))))).. ( -29.90)
>consensus
AAGGUAUUUUAUUUGGCAAUCAGAAAUUUAUUGCGUUUAUAUGGACUUAACGCUUAUCGCCUAAUACAGCUCAUUGAUUAAUGCGAUUUAUUUUUCAGUGAGCUGGUUUAGCUGUCUAAU
..(((....((((.(((....(....).....(((((...........))))).....))).))))(((((((((((..((((.....))))..))))))))))).....)))....... (-25.47 = -26.03 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:41 2006