Locus 8272

Sequence ID	X_DroMel_CAF1
Location	20,581,184 – 20,581,314
Length	130
Max. P	0.914677

overview

Window 1

Location	20,581,184 – 20,581,283
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	94.75
Mean single sequence MFE	-35.32
Consensus MFE	-28.82
Energy contribution	-29.34
Covariance contribution	0.52
Combinations/Pair	1.03
Mean z-score	-1.91
Structure conservation index	0.82
SVM decision value	1.10
SVM RNA-class probability	0.914677
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20581184 99 + 22224390
UUUUUCGAAGGGGGUGAUGUUUGUCAUAGAAGGCGUUUACUGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCUUGU
.......(((((((((..((((........((((((....((((((....))))))))))))(((((..........)))))))))..))))))))).. ( -36.00)
>DroSec_CAF1 150983 99 + 1
UUUUUCGAAGGGGGCGAUGUUUGUCAUAGAAGGCGUUUACUGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCUUGU
.......(((((((.(((....)))((((.((((((....((((((....))))))))))))(((((..........)))))...)))).))))))).. ( -33.50)
>DroSim_CAF1 164975 99 + 1
UUUUUCGAAGGGGGCGAUGUUUGUCAUAGAAGGCGUUUACUGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCUUGU
.......(((((((.(((....)))((((.((((((....((((((....))))))))))))(((((..........)))))...)))).))))))).. ( -33.50)
>DroEre_CAF1 145128 99 + 1
UUUUUCGGAGGGGGCGAUGUUUGUCAUAGAAGGGCUUUACUGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGCACUGUACCCUCCUGC
......(((((((((((...)))))((((..((((.....((((((....))))))..))))(.((((.((....)).)))).).)))).))))))... ( -36.10)
>DroYak_CAF1 148081 99 + 1
UUUUACGGAGGGGGUGAUGUUUGUCAUAAAAGGGGCUUACUGUAGGGCCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCCUGU
....((((.(((((((..((((..........((((....((((((....))))))..))))(((((..........)))))))))..))))))))))) ( -37.50)
>consensus
UUUUUCGAAGGGGGCGAUGUUUGUCAUAGAAGGCGUUUACUGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCUUGU
.....(((.(((((.(((....)))((((.((((((....((((((....))))))))))))(((((..........)))))...)))).)))))))). (-28.82 = -29.34 +   0.52)

alignment

secondary structure

dotplot

Window 2

Location	20,581,224 – 20,581,314
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	96.00
Mean single sequence MFE	-24.38
Consensus MFE	-23.60
Energy contribution	-23.28
Covariance contribution	-0.32
Combinations/Pair	1.07
Mean z-score	-1.02
Structure conservation index	0.97
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20581224 90 + 22224390
UGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCUUGUUUAGGACUUAAUUCGCUAGCGGUAUUAUAAA
.(((((....)))))((((((.(((((.((..(((......)))...)).)))))..(((.((((......)).)))))))))))..... ( -24.10)
>DroSec_CAF1 151023 90 + 1
UGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCUUGUUUAGGACUUAAUUCGCUAGCGGUAUUAUAAA
.(((((....)))))((((((.(((((.((..(((......)))...)).)))))..(((.((((......)).)))))))))))..... ( -24.10)
>DroSim_CAF1 165015 90 + 1
UGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCUUGUUUAGGACUUAAUUCGCUAGCGGUAUUAUAAA
.(((((....)))))((((((.(((((.((..(((......)))...)).)))))..(((.((((......)).)))))))))))..... ( -24.10)
>DroEre_CAF1 145168 90 + 1
UGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGCACUGUACCCUCCUGCUUAGGACUUUAUUUGCUAGCGGUAUUAUAAA
.(((((....)))))((((((.(((((..........)))))(((..(((...((((....))))...))).)))....))))))..... ( -24.70)
>DroYak_CAF1 148121 90 + 1
UGUAGGGCCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCCUGUUUAGGACUUUAAUCACUAGCGGUAUUAUAAA
.(((((....)))))((((((.(((((.((..(((......)))...)).)))))..(((.((((......)).)))))))))))..... ( -24.90)
>consensus
UGUAGGACCACCUGCAAUGCCUGGGGGAAUUGUCGAACUCCCGAACUGUACCCUCUUGUUUAGGACUUAAUUCGCUAGCGGUAUUAUAAA
.(((((....)))))((((((.(((((.((.((((......)).)).)).)))))..(((.((((......)).)))))))))))..... (-23.60 = -23.28 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:49 2006