Locus 2744

Sequence ID	2L_DroMel_CAF1
Location	7,719,548 – 7,719,701
Length	153
Max. P	0.534254

overview

Window 1

Location	7,719,548 – 7,719,668
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	93.89
Mean single sequence MFE	-27.23
Consensus MFE	-24.52
Energy contribution	-24.97
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-1.68
Structure conservation index	0.90
SVM decision value	0.00
SVM RNA-class probability	0.534254
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7719548 120 + 22407834
AUAGCGUCGAUUUGUUGUUGUAGACACUGAAAAUUUGCAUAGCUAUAAAAGUUGUUAGCAGUUAAAAGUAUUAACAUCCGUUAAUAGCAAAGUGUACCCCCUUACUUUGUUAGAUUGAUG
....((((((((((((......)))(((......((((((((((.....))))))..)))).....)))((((((....))))))(((((((((........)))))))))))))))))) ( -25.00)
>DroSec_CAF1 8232 120 + 1
AUCGCGUCGAUUUGUAGUUGUAGACACUGAACAUUUGCAUAGCUAUAAAACUUGUUAGCAGCUAAAAGUAUUAACAGCCAUUACUAGCAAAGUUUACCCCCUUACUUUGCUAGAUUGAUA
.....((((((.....(((((.((.(((......((((.((((..........)))))))).....))).)).))))).....((((((((((..........)))))))))))))))). ( -28.00)
>DroSim_CAF1 10426 120 + 1
AUCGCGUCGAUUUGUAGUUGUAGACACUGAACAUUUGCAUAGCUAUAAAACUUGUUAGCAGUUAAAAGUAUUAACAGCCGUUACUAGCAAAGUUUACCCCCUUACUUUGCUAGAUUGAUA
.....((((((.....(((((.((.(((......((((.((((..........)))))))).....))).)).))))).....((((((((((..........)))))))))))))))). ( -28.70)
>consensus
AUCGCGUCGAUUUGUAGUUGUAGACACUGAACAUUUGCAUAGCUAUAAAACUUGUUAGCAGUUAAAAGUAUUAACAGCCGUUACUAGCAAAGUUUACCCCCUUACUUUGCUAGAUUGAUA
.....((((((.....(((((.((.(((......((((.((((..........)))))))).....))).)).))))).....((((((((((..........)))))))))))))))). (-24.52 = -24.97 +   0.45)

alignment

secondary structure

dotplot

Window 2

Location	7,719,588 – 7,719,701
Length	113
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	87.78
Mean single sequence MFE	-24.13
Consensus MFE	-17.84
Energy contribution	-18.40
Covariance contribution	0.56
Combinations/Pair	1.08
Mean z-score	-1.98
Structure conservation index	0.74
SVM decision value	-0.05
SVM RNA-class probability	0.510005
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7719588 113 + 22407834
AGCUAUAAAAGUUGUUAGCAGUUAAAAGUAUUAACAUCCGUUAAUAGCAAAGUGUACCCCCUUACUUUGUUAGAUUGAUGGCAUCGUUGAAAAGUAUAUA-------AGGGGUAUUAAUA
..........(((((((((.(((((.....)))))....))))))))).....(((((((..((((((....(((.......))).....))))))....-------.)))))))..... ( -24.00)
>DroSec_CAF1 8272 120 + 1
AGCUAUAAAACUUGUUAGCAGCUAAAAGUAUUAACAGCCAUUACUAGCAAAGUUUACCCCCUUACUUUGCUAGAUUGAUAGCUUCGUUGAAAACUAUGUAAUUAUUAAAAAGUAUUAAAA
.((((..........)))).......(((.((((((((.((((((((((((((..........))))))))))..)))).)))..)))))..)))......................... ( -22.20)
>DroSim_CAF1 10466 120 + 1
AGCUAUAAAACUUGUUAGCAGUUAAAAGUAUUAACAGCCGUUACUAGCAAAGUUUACCCCCUUACUUUGCUAGAUUGAUAGCUUCGUUGAAAACUAUGUAAUUAUUAAAAAGUAUUAAAA
.....(((.((((.((((.(((((..(((.((((((((..(((((((((((((..........))))))))))..)))..)))..)))))..)))...))))).)))).)))).)))... ( -26.20)
>consensus
AGCUAUAAAACUUGUUAGCAGUUAAAAGUAUUAACAGCCGUUACUAGCAAAGUUUACCCCCUUACUUUGCUAGAUUGAUAGCUUCGUUGAAAACUAUGUAAUUAUUAAAAAGUAUUAAAA
.((((..........))))...........((((((((.((((((((((((((..........))))))))))..)))).)))..))))).............................. (-17.84 = -18.40 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:09 2006