Locus 6497

Sequence ID	X_DroMel_CAF1
Location	16,296,309 – 16,296,416
Length	107
Max. P	0.963540

overview

Window 1

Location	16,296,309 – 16,296,416
Length	107
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	90.09
Mean single sequence MFE	-26.45
Consensus MFE	-22.30
Energy contribution	-22.80
Covariance contribution	0.50
Combinations/Pair	1.06
Mean z-score	-2.36
Structure conservation index	0.84
SVM decision value	1.55
SVM RNA-class probability	0.963540
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16296309 107 + 22224390
UUGAGGACAUAACCUCAAAGUGAGAACAUAACCUCAAAGGGAGGACAUAACCUCAAAAUGAGACAUAACCUCUAAUAUGU-----UUAUGGUU--------AAAAUGUUUGCUUUGAACU
..((((......))))(((((..((((((...((((....((((......))))....))))...(((((..(((.....-----))).))))--------)..)))))))))))..... ( -24.90)
>DroSec_CAF1 10870 112 + 1
UUGAGGACAUAACCUCAAAGUGAGAACAUAACCUCAAAGGGAGGACAUAAUCUCAAAAUGAGACAUAACCUCAAAUAUGCGAUCGCUAUGGUU--------AAAAUGUUUGCUUUGAACU
((((((......))))))(((((...((((.((.....))((((......((((.....)))).....))))...))))...)))))......--------.....((((.....)))). ( -25.30)
>DroEre_CAF1 11572 112 + 1
UUGAGGACAUAACCUCAAAGUGAGAACAUAACCUCAUUGCGAGGACAUAGCCUCAAAAUGAGACAUAACCUCAAAUAUGCGAUCGCUAUGGUU--------AAAAUGUUUGCUUUUAACU
.(((((......)))))((((..((((((...((((((..((((......))))..))))))...(((((....(((.((....)))))))))--------)..))))))))))...... ( -28.30)
>DroYak_CAF1 10907 120 + 1
UUGAGGACAUAACCUCAAAGUGAGAACAUAACCUCAAGGCGAGGACAUAACCUCAAAAUGAGACAUAACCUCAAAUAUGCGAUCGCUAUGGUUAGAAUGUUAAAAUGUUUGCUUUGAACU
((((((......))))))...............(((((((((((......)))).......(((((((((....(((.((....))))))))))...)))).........)))))))... ( -27.30)
>consensus
UUGAGGACAUAACCUCAAAGUGAGAACAUAACCUCAAAGCGAGGACAUAACCUCAAAAUGAGACAUAACCUCAAAUAUGCGAUCGCUAUGGUU________AAAAUGUUUGCUUUGAACU
..((((......))))(((((..((((((..((((.....)))).(((((((((.....))).((((........)))).....))))))..............)))))))))))..... (-22.30 = -22.80 +   0.50)

alignment

secondary structure

dotplot

Window 2

Location	16,296,309 – 16,296,416
Length	107
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	90.09
Mean single sequence MFE	-27.18
Consensus MFE	-24.14
Energy contribution	-23.82
Covariance contribution	-0.31
Combinations/Pair	1.11
Mean z-score	-1.94
Structure conservation index	0.89
SVM decision value	1.22
SVM RNA-class probability	0.932138
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16296309 107 - 22224390
AGUUCAAAGCAAACAUUUU--------AACCAUAA-----ACAUAUUAGAGGUUAUGUCUCAUUUUGAGGUUAUGUCCUCCCUUUGAGGUUAUGUUCUCACUUUGAGGUUAUGUCCUCAA
...................--------........-----........((((.(((((((((...((((..((((.((((.....)))).))))..))))...))))).)))).)))).. ( -23.50)
>DroSec_CAF1 10870 112 - 1
AGUUCAAAGCAAACAUUUU--------AACCAUAGCGAUCGCAUAUUUGAGGUUAUGUCUCAUUUUGAGAUUAUGUCCUCCCUUUGAGGUUAUGUUCUCACUUUGAGGUUAUGUCCUCAA
...................--------.......((....))....((((((.(((((((((...(((((.((((.((((.....)))).)))).)))))...))))).)))).)))))) ( -26.80)
>DroEre_CAF1 11572 112 - 1
AGUUAAAAGCAAACAUUUU--------AACCAUAGCGAUCGCAUAUUUGAGGUUAUGUCUCAUUUUGAGGCUAUGUCCUCGCAAUGAGGUUAUGUUCUCACUUUGAGGUUAUGUCCUCAA
.(((((((.......))))--------)))....((....))......((((.((((((((.....))))).))).))))....(((((.((((..(((.....)))..)))).))))). ( -31.60)
>DroYak_CAF1 10907 120 - 1
AGUUCAAAGCAAACAUUUUAACAUUCUAACCAUAGCGAUCGCAUAUUUGAGGUUAUGUCUCAUUUUGAGGUUAUGUCCUCGCCUUGAGGUUAUGUUCUCACUUUGAGGUUAUGUCCUCAA
.(((.(((.......))).)))........((((((..(((......))).)))))).......((((((.((((.(((((...(((((......)))))...))))).)))).)))))) ( -26.80)
>consensus
AGUUCAAAGCAAACAUUUU________AACCAUAGCGAUCGCAUAUUUGAGGUUAUGUCUCAUUUUGAGGUUAUGUCCUCCCUUUGAGGUUAUGUUCUCACUUUGAGGUUAUGUCCUCAA
..............................((((((....(((((........)))))((((...(((((.((((.((((.....)))).)))).)))))...))))))))))....... (-24.14 = -23.82 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:19 2006