Locus 5691

Sequence ID	X_DroMel_CAF1
Location	14,719,483 – 14,719,584
Length	101
Max. P	0.898501

overview

Window 1

Location	14,719,483 – 14,719,584
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	86.53
Mean single sequence MFE	-22.66
Consensus MFE	-17.00
Energy contribution	-17.32
Covariance contribution	0.32
Combinations/Pair	1.09
Mean z-score	-2.18
Structure conservation index	0.75
SVM decision value	1.00
SVM RNA-class probability	0.898501
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14719483 101 + 22224390
AUUCCCUAUUUUAAAUCGGCUUAAGAAAGUAUGCAGCUUUCUUAAAGCUCUUAAAAUCGCAAGCCUGCUUUUUAGCCGACUUUACAAAUGAGAAGCUUUUA
.(((..((((((((((((((((((((((((.....))))))))))......(((((..(((....))).)))))))))).)))).))))).)))....... ( -22.80)
>DroSec_CAF1 12614 101 + 1
AUUCCCCAUUUUACAUCGGCUAAAGAAAGUAUGCAGCUUUCUUAAAGCUCUUAAAAUGGCAAGCCUGCUUUUUAGCCGGCAUUACAAAUGUGAAGCUUUUA
.....((((((((....((((.((((((((.....))))))))..))))..))))))))...(((.(((....))).))).((((....))))........ ( -27.40)
>DroSim_CAF1 16521 101 + 1
AUUCCCCGUUUUACAUCGGCUAAAGAAAGUAUGCAGCUUUCUUAAAGCUCUUAAAAUGGCAAGCCUGCUUUUUAGCCGGCAUUAGAAAUGUGAAGCUUUUA
.......(((((((((...(((((((((((.....))))))))...(((........)))..(((.(((....))).)))..)))..)))))))))..... ( -28.10)
>DroEre_CAF1 9961 101 + 1
CUUGCCUAUUUUAGCUCGGUUAAAGAAAGUCUUCAGCUUUCUCAAAGCUCUCAAAAUCGUAAGCCUGCUUUUUAGCCGACUUUACAAAUGUUAAGCUUUCA
((((..(((((.((.(((((((((((((((.....)))))).....(((..(......)..)))......)))))))))))....))))).))))...... ( -18.00)
>DroYak_CAF1 12944 101 + 1
UUUUCCUAUUCAAACUCGGUUUAAAAAAGUGUGCAGCUUUCUGAAAGCUCUUAAAAUCUUAAGCCUGCUUUUUAGCCGAUUUUACAAAUGUUAAGCUUUCA
...........(((.((((((..((((((((.(((((((.....))))).((((....)))))).)))))))))))))).))).................. ( -17.00)
>consensus
AUUCCCUAUUUUAAAUCGGCUAAAGAAAGUAUGCAGCUUUCUUAAAGCUCUUAAAAUCGCAAGCCUGCUUUUUAGCCGACUUUACAAAUGUGAAGCUUUUA
...............(((((((((((((((.....))))))).(((((.(((........)))...)))))))))))))...................... (-17.00 = -17.32 +   0.32)

alignment

secondary structure

dotplot

Window 2

Location	14,719,483 – 14,719,584
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	86.53
Mean single sequence MFE	-24.48
Consensus MFE	-17.94
Energy contribution	-18.38
Covariance contribution	0.44
Combinations/Pair	1.14
Mean z-score	-2.08
Structure conservation index	0.73
SVM decision value	0.73
SVM RNA-class probability	0.834168
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14719483 101 - 22224390
UAAAAGCUUCUCAUUUGUAAAGUCGGCUAAAAAGCAGGCUUGCGAUUUUAAGAGCUUUAAGAAAGCUGCAUACUUUCUUAAGCCGAUUUAAAAUAGGGAAU
.......(((((((((...(((((((((.......((((((..........))))))((((((((.......))))))))))))))))).)))).))))). ( -27.70)
>DroSec_CAF1 12614 101 - 1
UAAAAGCUUCACAUUUGUAAUGCCGGCUAAAAAGCAGGCUUGCCAUUUUAAGAGCUUUAAGAAAGCUGCAUACUUUCUUUAGCCGAUGUAAAAUGGGGAAU
.....................(((.(((....))).)))((.((((((((.(.(((..(((((((.......))))))).))))....)))))))).)).. ( -26.10)
>DroSim_CAF1 16521 101 - 1
UAAAAGCUUCACAUUUCUAAUGCCGGCUAAAAAGCAGGCUUGCCAUUUUAAGAGCUUUAAGAAAGCUGCAUACUUUCUUUAGCCGAUGUAAAACGGGGAAU
..............((((...(((.(((....))).)))...((.(((((.(.(((..(((((((.......))))))).))))....))))).)))))). ( -22.30)
>DroEre_CAF1 9961 101 - 1
UGAAAGCUUAACAUUUGUAAAGUCGGCUAAAAAGCAGGCUUACGAUUUUGAGAGCUUUGAGAAAGCUGAAGACUUUCUUUAACCGAGCUAAAAUAGGCAAG
.....(((((.((.((((((.(((.(((....))).)))))))))...))..(((((.((((((((....).))))))).....)))))....)))))... ( -25.90)
>DroYak_CAF1 12944 101 - 1
UGAAAGCUUAACAUUUGUAAAAUCGGCUAAAAAGCAGGCUUAAGAUUUUAAGAGCUUUCAGAAAGCUGCACACUUUUUUAAACCGAGUUUGAAUAGGAAAA
(((((((((........(((((((((((........))))...))))))).)))))))))............(((.(((((((...))))))).))).... ( -20.40)
>consensus
UAAAAGCUUCACAUUUGUAAAGUCGGCUAAAAAGCAGGCUUGCGAUUUUAAGAGCUUUAAGAAAGCUGCAUACUUUCUUUAGCCGAUGUAAAAUAGGGAAU
..(((((((.....((((((.(((.(((....))).)))))))))......)))))))(((((((.......)))))))...((...........)).... (-17.94 = -18.38 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:09 2006