Locus 1405

Sequence ID	2R_DroMel_CAF1
Location	5,435,731 – 5,435,850
Length	119
Max. P	0.999710

overview

Window 9

Location	5,435,731 – 5,435,850
Length	119
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	93.77
Mean single sequence MFE	-37.11
Consensus MFE	-33.78
Energy contribution	-34.02
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.36
Structure conservation index	0.91
SVM decision value	0.91
SVM RNA-class probability	0.880810
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5435731 119 + 20766785
CUUAGGACGUGCCACUCACCGUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGGCUUGCGAUUGAACGCCCCCGGCAAUAACUCAUGUUUUAGUCACUUCUUGAGUGGCUUUGU
......(((.((((((((.......((((((((((....((((......(((.((.....)).))).......))))))))...(((....)))..))))))....))))))))..))) ( -36.72)
>DroSec_CAF1 24388 119 + 1
CUUAGGACGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGGCUUGCGAUUGAACGCCCCCGGCAGUAACUCAUGUUUUAGUCACUUCUUGAGUGGCUUUGU
......(((.((((((((.......((((((((((....((((......(((.((.....)).))).......))))))))...(((....)))..))))))....))))))))..))) ( -36.72)
>DroSim_CAF1 24522 119 + 1
CUUAGGACGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGACUUGCGAUUGAACGCCCCCGGCAGUAACUCAUGUUUUAGUCACUUCUUGAGUGGCUUUGU
......(((.((((((((.......((((((((((....((((......(((.((.....)).))).......))))))))...(((....)))..))))))....))))))))..))) ( -36.72)
>DroEre_CAF1 24840 117 + 1
CUUAGGAUGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAGCUCGGAAUAGGCUUGCGAUGGA--GCAACCGGCAGUAAUUCAUGUUUUAGUCACCAUUUGAGUGGCAUUAU
........((((((((((.......(((((((((((((.(((......))).)))).((.((((......--)))))))))).(((........))))))))....))))))))))... ( -37.80)
>DroYak_CAF1 25276 117 + 1
CUUAGGAUGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGGCUUGCGAUUGA--GCCCCCGGCAGUAACUCAUGUUUAAGUCACUUCUUGAGUGGCUUUGU
..........((((((((.......(((((((((((((..(((.....))).)))).(((((......))--)))...)))...(((....)))..))))))....))))))))..... ( -37.60)
>consensus
CUUAGGACGUGCCACUCACCAUUUUGUGACUGCCGUUCAGGGGAUUAUCUCGGAAUAGGCUUGCGAUUGAACGCCCCCGGCAGUAACUCAUGUUUUAGUCACUUCUUGAGUGGCUUUGU
..........((((((((.......((((((((((....((((......(((.((.....)).))).......))))))))...(((....)))..))))))....))))))))..... (-33.78 = -34.02 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	5,435,731 – 5,435,850
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	93.77
Mean single sequence MFE	-37.14
Consensus MFE	-33.26
Energy contribution	-33.86
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.59
Structure conservation index	0.90
SVM decision value	3.93
SVM RNA-class probability	0.999710
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5435731 119 - 20766785
ACAAAGCCACUCAAGAAGUGACUAAAACAUGAGUUAUUGCCGGGGGCGUUCAAUCGCAAGCCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAACGGUGAGUGGCACGUCCUAAG
.....((((((((....((((((..(((....)))...((((((((.(((...(((.((.....)).)))...)))))))....)))))))))).......)))))))).......... ( -37.10)
>DroSec_CAF1 24388 119 - 1
ACAAAGCCACUCAAGAAGUGACUAAAACAUGAGUUACUGCCGGGGGCGUUCAAUCGCAAGCCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACGUCCUAAG
.....((((((((....((((((..(((....)))...((((((((.(((...(((.((.....)).)))...)))))))....)))))))))).......)))))))).......... ( -37.10)
>DroSim_CAF1 24522 119 - 1
ACAAAGCCACUCAAGAAGUGACUAAAACAUGAGUUACUGCCGGGGGCGUUCAAUCGCAAGUCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACGUCCUAAG
.....((((((((....((((((..(((....)))...((((((((((......)))..((((......))))...)))).....))))))))).......)))))))).......... ( -38.50)
>DroEre_CAF1 24840 117 - 1
AUAAUGCCACUCAAAUGGUGACUAAAACAUGAAUUACUGCCGGUUGC--UCCAUCGCAAGCCUAUUCCGAGCUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACAUCCUAAG
....(((((((((...(....).....(((.....(((((((..(((--......)))((((......).)))...........)))))))......))).)))))))))......... ( -34.70)
>DroYak_CAF1 25276 117 - 1
ACAAAGCCACUCAAGAAGUGACUUAAACAUGAGUUACUGCCGGGGGC--UCAAUCGCAAGCCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACAUCCUAAG
.....((((((((...(((((((((....)))))))))((((((((.--....(((.((.....)).)))......))))....)))).............)))))))).......... ( -38.30)
>consensus
ACAAAGCCACUCAAGAAGUGACUAAAACAUGAGUUACUGCCGGGGGCGUUCAAUCGCAAGCCUAUUCCGAGAUAAUCCCCUGAACGGCAGUCACAAAAUGGUGAGUGGCACGUCCUAAG
.....((((((((....((((((..(((....)))...((((((((.......(((.((.....)).)))......))))....)))))))))).......)))))))).......... (-33.26 = -33.86 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:04 2006