Locus 531

Sequence ID	X_DroMel_CAF1
Location	1,518,099 – 1,518,200
Length	101
Max. P	0.998935

overview

Window 5

Location	1,518,099 – 1,518,200
Length	101
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	76.91
Mean single sequence MFE	-36.80
Consensus MFE	-27.58
Energy contribution	-28.30
Covariance contribution	0.72
Combinations/Pair	1.11
Mean z-score	-2.95
Structure conservation index	0.75
SVM decision value	3.29
SVM RNA-class probability	0.998935
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1518099 101 + 22224390
GAAUCAAUAGCCCCACGAACGGGGAUUGGAAGCCUAGCA------------GGCAGUCUAAUAACGAACUAGGCAUUGGUGACCAGCG-------AUCACUGGUCAGCAUGAGGUUUCCU
..........((((......))))...((((((((....------------.((.(((((.........))))).....(((((((..-------....)))))))))...)))))))). ( -36.30)
>DroSec_CAF1 7548 101 + 1
GAAUCAAUAGCCCCACGAAUGGGGAUUGGAAGCCUAGCA------------GGCAGUCUAAUAACUAACUAGGCAUUGGUGACCAGCG-------AUCACUGGUCAGCAUGAGGUUUCCU
..........(((((....)))))...((((((((....------------.((.(((((.........))))).....(((((((..-------....)))))))))...)))))))). ( -36.80)
>DroSim_CAF1 8811 101 + 1
GAAUCAAUAGCCCCACGAAUGGGGAUUGGAAGCCUAGCA------------GGCAGUCUAAUAACUAACUAGGCAUUGGUGACCAGCG-------AUCACUGGUCAGCAUGAGGUUUCCU
..........(((((....)))))...((((((((....------------.((.(((((.........))))).....(((((((..-------....)))))))))...)))))))). ( -36.80)
>DroEre_CAF1 7674 113 + 1
GAAACAAUAGCCCUACGAAUAGGGAUUGGAAGCCCGGGAUCGAAAGCCCCGUGCAGUC-------GAAAUAGGCAUUGGUGAUCAGCGGUCGGCGAUCACUGGUCACCAUGAGGUUUCCU
..........(((((....)))))...(((((((((((..(....).))))....(((-------......)))..((((((((((.((((...)))).))))))))))...))))))). ( -45.50)
>DroYak_CAF1 9237 88 + 1
GAAACAAUAGCCCUAUGACUAGGGAUUGGAAGUCU--------------------------------AAUAGGCAUUGGUGAUCAGCGAUCAGCUAUCACUGGUCAGCAUGAGGUUUCCU
..........(((((....)))))...((((..((--------------------------------.....((((..(((((.(((.....))))))))..))..))...))..)))). ( -28.60)
>consensus
GAAUCAAUAGCCCCACGAAUGGGGAUUGGAAGCCUAGCA____________GGCAGUCUAAUAACGAACUAGGCAUUGGUGACCAGCG_______AUCACUGGUCAGCAUGAGGUUUCCU
..........((((......))))...((((((((....................(((((.........)))))..((.(((((((.(.........).))))))).))..)))))))). (-27.58 = -28.30 +   0.72)

alignment

secondary structure

dotplot

Window 6

Location	1,518,099 – 1,518,200
Length	101
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	76.91
Mean single sequence MFE	-34.60
Consensus MFE	-27.19
Energy contribution	-28.19
Covariance contribution	1.00
Combinations/Pair	1.11
Mean z-score	-2.96
Structure conservation index	0.79
SVM decision value	3.25
SVM RNA-class probability	0.998852
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1518099 101 - 22224390
AGGAAACCUCAUGCUGACCAGUGAU-------CGCUGGUCACCAAUGCCUAGUUCGUUAUUAGACUGCC------------UGCUAGGCUUCCAAUCCCCGUUCGUGGGGCUAUUGAUUC
.((((......((.((((((((...-------.)))))))).))..(((((((..((.........)).------------.)))))))))))...(((((....))))).......... ( -36.20)
>DroSec_CAF1 7548 101 - 1
AGGAAACCUCAUGCUGACCAGUGAU-------CGCUGGUCACCAAUGCCUAGUUAGUUAUUAGACUGCC------------UGCUAGGCUUCCAAUCCCCAUUCGUGGGGCUAUUGAUUC
.((((......((.((((((((...-------.)))))))).))..((((((((((((....)))))..------------.)))))))))))...(((((....))))).......... ( -38.90)
>DroSim_CAF1 8811 101 - 1
AGGAAACCUCAUGCUGACCAGUGAU-------CGCUGGUCACCAAUGCCUAGUUAGUUAUUAGACUGCC------------UGCUAGGCUUCCAAUCCCCAUUCGUGGGGCUAUUGAUUC
.((((......((.((((((((...-------.)))))))).))..((((((((((((....)))))..------------.)))))))))))...(((((....))))).......... ( -38.90)
>DroEre_CAF1 7674 113 - 1
AGGAAACCUCAUGGUGACCAGUGAUCGCCGACCGCUGAUCACCAAUGCCUAUUUC-------GACUGCACGGGGCUUUCGAUCCCGGGCUUCCAAUCCCUAUUCGUAGGGCUAUUGUUUC
.((((......((((((.(((((.((...)).))))).))))))..((((...((-------((..((.....))..))))....))))))))...(((((....))))).......... ( -37.20)
>DroYak_CAF1 9237 88 - 1
AGGAAACCUCAUGCUGACCAGUGAUAGCUGAUCGCUGAUCACCAAUGCCUAUU--------------------------------AGACUUCCAAUCCCUAGUCAUAGGGCUAUUGUUUC
..(((((....((.(((.(((((((.....))))))).))).))..((((...--------------------------------.((((..........))))...))))....))))) ( -21.80)
>consensus
AGGAAACCUCAUGCUGACCAGUGAU_______CGCUGGUCACCAAUGCCUAGUUAGUUAUUAGACUGCC____________UGCUAGGCUUCCAAUCCCCAUUCGUGGGGCUAUUGAUUC
.((((......((.(((((((((.........))))))))).))..(((((((.............................)))))))))))...(((((....))))).......... (-27.19 = -28.19 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:03 2006