Locus 6185

Sequence ID	3L_DroMel_CAF1
Location	16,384,569 – 16,384,664
Length	95
Max. P	0.990876

overview

Window 9

Location	16,384,569 – 16,384,664
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	82.89
Mean single sequence MFE	-31.00
Consensus MFE	-22.28
Energy contribution	-22.52
Covariance contribution	0.24
Combinations/Pair	1.18
Mean z-score	-2.93
Structure conservation index	0.72
SVM decision value	2.24
SVM RNA-class probability	0.990876
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16384569 95 + 23771897
CAAAUGCAUGCGUGGUGAUCAGCUGUUUCUACAGCUGGUUUAAACAGAGCAGAUUGAACAGCAUUGCCAAACAGCAGAGGUGCCAAUGCAAAGAU
....(((.(((.((..((((((((((....))))))))))....))..))).((((..((.(.((((......)))).).)).)))))))..... ( -27.40)
>DroSec_CAF1 1822 95 + 1
CAACUGCAUGCGUGGUGAUCAGCUGUUUAUACAGCUGGUUUAAACAGAGUAGCUUUAACAGCAUUGUCCAGCAGCAGAGGUGCCAAUGUAAAGAU
...((((.(((((...((((((((((....))))))))))...))......(((.....)))........))))))).................. ( -28.20)
>DroSim_CAF1 1823 95 + 1
CAACUGCAUGCGUGGUGAUCAGCUGUUUCUACAGCUGGUUUAAACAGAGCAGCUUUAACAGCAUUGCUCAGCAGUAGAGGUGCCAAUGCAAAAAU
...((((.(((((...((((((((((....))))))))))...)).((((((((.....)))..))))).)))))))...(((....)))..... ( -34.10)
>DroEre_CAF1 1822 89 + 1
CAACUGCAUGCGUGGUGAUCAGCUGUUUCUACAGCUGGUCUUAACAGGGCAGUCCUAACAGCAUUACUUAGCAGCAGUG------AUGCCAAUAU
..(((((....((...((((((((((....))))))))))...))...))))).......((((((((.......))))------))))...... ( -32.30)
>DroYak_CAF1 1821 92 + 1
CAACUGCAUGCGUGGUGAUCAGCUGUUUCUACAGCUGGUACCAACAGAGCAGUCCUAACAGCAUUACCUAGCAGAGGUG---UAAGUGCAAAGUU
..(((((.((..((((.(((((((((....))))))))))))).))..))))).......(((((((((.....)))))---...))))...... ( -33.00)
>consensus
CAACUGCAUGCGUGGUGAUCAGCUGUUUCUACAGCUGGUUUAAACAGAGCAGCUUUAACAGCAUUGCCCAGCAGCAGAGGUGCCAAUGCAAAGAU
...((((.(((((...((((((((((....))))))))))...))...((.(......).))........))))))).................. (-22.28 = -22.52 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	16,384,569 – 16,384,664
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	82.89
Mean single sequence MFE	-26.76
Consensus MFE	-18.46
Energy contribution	-18.86
Covariance contribution	0.40
Combinations/Pair	1.22
Mean z-score	-2.14
Structure conservation index	0.69
SVM decision value	0.87
SVM RNA-class probability	0.871497
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16384569 95 - 23771897
AUCUUUGCAUUGGCACCUCUGCUGUUUGGCAAUGCUGUUCAAUCUGCUCUGUUUAAACCAGCUGUAGAAACAGCUGAUCACCACGCAUGCAUUUG
.....(((((.((((....))))((.(((....((((((...(((((.(((.......)))..)))))))))))......))).))))))).... ( -24.30)
>DroSec_CAF1 1822 95 - 1
AUCUUUACAUUGGCACCUCUGCUGCUGGACAAUGCUGUUAAAGCUACUCUGUUUAAACCAGCUGUAUAAACAGCUGAUCACCACGCAUGCAGUUG
..................((((((((((........(((.((((......)))).)))(((((((....)))))))....))).))).))))... ( -25.90)
>DroSim_CAF1 1823 95 - 1
AUUUUUGCAUUGGCACCUCUACUGCUGAGCAAUGCUGUUAAAGCUGCUCUGUUUAAACCAGCUGUAGAAACAGCUGAUCACCACGCAUGCAGUUG
....(((((((((..........((.(((((..(((.....)))))))).))......(((((((....)))))))....)))...))))))... ( -27.30)
>DroEre_CAF1 1822 89 - 1
AUAUUGGCAU------CACUGCUGCUAAGUAAUGCUGUUAGGACUGCCCUGUUAAGACCAGCUGUAGAAACAGCUGAUCACCACGCAUGCAGUUG
...((((((.------((.((((....)))).)).))))))((((((..(((...((.(((((((....))))))).))...)))...)))))). ( -27.80)
>DroYak_CAF1 1821 92 - 1
AACUUUGCACUUA---CACCUCUGCUAGGUAAUGCUGUUAGGACUGCUCUGUUGGUACCAGCUGUAGAAACAGCUGAUCACCACGCAUGCAGUUG
(((...(((....---.((((.....))))..))).)))..((((((..(((((((..(((((((....)))))))...)))).))).)))))). ( -28.50)
>consensus
AUCUUUGCAUUGGCACCUCUGCUGCUAGGCAAUGCUGUUAAAACUGCUCUGUUUAAACCAGCUGUAGAAACAGCUGAUCACCACGCAUGCAGUUG
....................(((((......((((.(((.((((......)))).)))(((((((....)))))))........))))))))).. (-18.46 = -18.86 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:13 2006