Locus 146

Sequence ID	3L_DroMel_CAF1
Location	451,447 – 451,552
Length	105
Max. P	0.749008

overview

Window 6

Location	451,447 – 451,552
Length	105
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	89.47
Mean single sequence MFE	-28.44
Consensus MFE	-23.27
Energy contribution	-23.11
Covariance contribution	-0.16
Combinations/Pair	1.11
Mean z-score	-1.35
Structure conservation index	0.82
SVM decision value	0.00
SVM RNA-class probability	0.534017
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 451447 105 + 23771897
AUCUGCAU-------GGGAAACGUCAUUGGCAAAUGCAUUUCCUCGCCAGUUUUCCUCCUGUCUUGCCUCGAUUUCCAUUUUUGGCCACGGCU------UAGCGCGAUUUGGAAAUCA
....(((.-------((((((....((((((..............))))))))))).).)))........((((((((..((.(((....)))------......))..)))))))). ( -24.34)
>DroSec_CAF1 32420 111 + 1
AUAUGCAU-------GGGAAAUGUCAUUGGCAAAUGCAUUUCCUCGCCAGUUUUCCUCCUGUCUUGCCUCGAUUUCCAUUUUUGGCCACGGCUUAGGCUUAGCCCGCUUUGGAAAUCA
....(((.-------((((((((.((((....)))))))))))).(.(((........))).).)))...((((((((.....(((...(((....)))..))).....)))))))). ( -32.80)
>DroSim_CAF1 32774 105 + 1
AUCUGCAU-------GGGAAACGUCAUUGGCAAAUACAUUUCCUCGCCAGUUUUCCUCCUGUCUUGCCUCGAUUUCCAUUUUUGGCCACGGCU------UAGCGCGCUUUGGAAAUCA
....(((.-------((((((....((((((..............))))))))))).).)))........((((((((.....((((.(....------..).).))).)))))))). ( -24.44)
>DroEre_CAF1 34496 104 + 1
AUCUGCAU-------GGAAAACGUCAUUGGAAAAGGCAUUUCCUCGCCAGUUUUUCCCCG-UCUUGCCACGAUUUCCAUUUUUGGCCACGGCU------UAGCGCGCUUUGGAAAUCA
.......(-------((((.(((.....(((((((((........)))...)))))).))-).)).))).((((((((.....((((.(....------..).).))).)))))))). ( -24.70)
>DroYak_CAF1 33697 112 + 1
AUCUGCAUGGAGCAUGGAAAACGUCAUUGGCAAAUGCAUUUCCUCGCCAGUUUUCCUCCACUCUUGCCUCGAUUUCCAUUUUUGGCCGCGGCU------UAGCGCGCUUUGGAAAUCA
....(((.((((...(((((((.....((((..............)))))))))))....)))))))...((((((((.....((((((....------..))).))).)))))))). ( -35.94)
>consensus
AUCUGCAU_______GGGAAACGUCAUUGGCAAAUGCAUUUCCUCGCCAGUUUUCCUCCUGUCUUGCCUCGAUUUCCAUUUUUGGCCACGGCU______UAGCGCGCUUUGGAAAUCA
....(((........(((((((.....((((..............)))))))))))........)))...((((((((.....(((....(((.......)))..))).)))))))). (-23.27 = -23.11 +  -0.16)

alignment

secondary structure

dotplot

Window 7

Location	451,447 – 451,552
Length	105
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	89.47
Mean single sequence MFE	-31.80
Consensus MFE	-23.93
Energy contribution	-23.81
Covariance contribution	-0.12
Combinations/Pair	1.10
Mean z-score	-1.85
Structure conservation index	0.75
SVM decision value	0.47
SVM RNA-class probability	0.749008
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 451447 105 - 23771897
UGAUUUCCAAAUCGCGCUA------AGCCGUGGCCAAAAAUGGAAAUCGAGGCAAGACAGGAGGAAAACUGGCGAGGAAAUGCAUUUGCCAAUGACGUUUCCC-------AUGCAGAU
.((((((((......((((------.....))))......))))))))...(((...(((........)))..(.(((((((((((....)))).))))))))-------.))).... ( -28.60)
>DroSec_CAF1 32420 111 - 1
UGAUUUCCAAAGCGGGCUAAGCCUAAGCCGUGGCCAAAAAUGGAAAUCGAGGCAAGACAGGAGGAAAACUGGCGAGGAAAUGCAUUUGCCAAUGACAUUUCCC-------AUGCAUAU
.((((((((.....(((((.((....))..))))).....))))))))...(((...(((........)))..(.(((((((((((....)))).))))))))-------.))).... ( -35.30)
>DroSim_CAF1 32774 105 - 1
UGAUUUCCAAAGCGCGCUA------AGCCGUGGCCAAAAAUGGAAAUCGAGGCAAGACAGGAGGAAAACUGGCGAGGAAAUGUAUUUGCCAAUGACGUUUCCC-------AUGCAGAU
.((((((((..((.(((..------....)))))......))))))))...(((...(((........)))..(.((((((((...........)))))))))-------.))).... ( -26.60)
>DroEre_CAF1 34496 104 - 1
UGAUUUCCAAAGCGCGCUA------AGCCGUGGCCAAAAAUGGAAAUCGUGGCAAGA-CGGGGAAAAACUGGCGAGGAAAUGCCUUUUCCAAUGACGUUUUCC-------AUGCAGAU
.((((((((..((.(((..------....)))))......))))))))((((.((((-((.((((((...((((......)))))))))).....))))))))-------))...... ( -31.30)
>DroYak_CAF1 33697 112 - 1
UGAUUUCCAAAGCGCGCUA------AGCCGCGGCCAAAAAUGGAAAUCGAGGCAAGAGUGGAGGAAAACUGGCGAGGAAAUGCAUUUGCCAAUGACGUUUUCCAUGCUCCAUGCAGAU
.((((((((..((.(((..------....)))))......))))))))...(((.(((((..((((((((((((((........))))))).....))))))).)))))..))).... ( -37.20)
>consensus
UGAUUUCCAAAGCGCGCUA______AGCCGUGGCCAAAAAUGGAAAUCGAGGCAAGACAGGAGGAAAACUGGCGAGGAAAUGCAUUUGCCAAUGACGUUUCCC_______AUGCAGAU
.((((((((..(((.(((.......)))))).........))))))))...(((........(((((..(((((((........)))))))......))))).........))).... (-23.93 = -23.81 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:47 2006