Locus 734

Sequence ID	3R_DroMel_CAF1
Location	2,609,979 – 2,610,099
Length	120
Max. P	0.800932

overview

Window 0

Location	2,609,979 – 2,610,099
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.50
Mean single sequence MFE	-30.75
Consensus MFE	-27.24
Energy contribution	-27.30
Covariance contribution	0.06
Combinations/Pair	1.10
Mean z-score	-1.52
Structure conservation index	0.89
SVM decision value	0.32
SVM RNA-class probability	0.688853
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2609979 120 + 27905053
ACAAGCACUUACAAAAGUUACUCCUCCGGAUGGAAAAUGCAGAGUGCAUUUAGCCGAGGGAGAUCAAUUGGAUUUGGUUCCAGGACUUUAUUAAGGCACCGUUGAGAAUUUUUGUUAAAU
..........(((((((((.((((..(((.....((((((.....))))))..)))..)))).(((((((((......))))((.(((....)))...))))))).)))))))))..... ( -32.20)
>DroSim_CAF1 74069 120 + 1
ACAAGCACUUACAAAAGUUACUCCUCCGGAUGGAAAAUGCAGAGUGCAUUUAGCCGAGGGAGAUCAAUUGGAUUUGGUUCUAGGACUUUAUUAAGGCACCGCUGAGAAUUUUCGCCAAAU
....((.((((..((((((.((((..(((.....((((((.....))))))..)))..)))).....(((((......)))))))))))..))))))...((.(((....)))))..... ( -30.60)
>DroEre_CAF1 78717 120 + 1
ACAAGCACUUACAAAAGUUACUCCUCCGGAUGGAAAAUGCAGAGUGCAUUUAGCCGAAGGAGAUCAAUUAGAUUUGGUGCUAGGUCUUUAUUAAGGCACCAAUGAGAAUAAAUUGGAAAU
.(.((((((...........(((((.(((.....((((((.....))))))..))).)))))(((.....)))..)))))).)(((((....))))).(((((........))))).... ( -33.30)
>DroYak_CAF1 77227 120 + 1
ACAAGCACUUACAAAAGUUACUCCUCCGGAUGGAAAAUGCAGAGUGCAUUUAGCCGAAGGAGAUCAAUUAGAUUUGGUUCUAGGUCUUUAUUAAGGCACCCCUGAGAAUUAUUGGUAAAU
...........(((.((((.(((((.(((.....((((((.....))))))..))).))))).(((.(((((......)))))(((((....))))).....))).)))).)))...... ( -26.90)
>consensus
ACAAGCACUUACAAAAGUUACUCCUCCGGAUGGAAAAUGCAGAGUGCAUUUAGCCGAAGGAGAUCAAUUAGAUUUGGUUCUAGGACUUUAUUAAGGCACCGCUGAGAAUUAUUGGUAAAU
....((.((((..((((((.(((((.(((.....((((((.....))))))..))).))))).....(((((......)))))))))))..))))))....................... (-27.24 = -27.30 +   0.06)

alignment

secondary structure

dotplot

Window 1

Location	2,609,979 – 2,610,099
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.50
Mean single sequence MFE	-27.72
Consensus MFE	-24.17
Energy contribution	-24.93
Covariance contribution	0.75
Combinations/Pair	1.03
Mean z-score	-1.71
Structure conservation index	0.87
SVM decision value	0.62
SVM RNA-class probability	0.800932
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2609979 120 - 27905053
AUUUAACAAAAAUUCUCAACGGUGCCUUAAUAAAGUCCUGGAACCAAAUCCAAUUGAUCUCCCUCGGCUAAAUGCACUCUGCAUUUUCCAUCCGGAGGAGUAACUUUUGUAAGUGCUUGU
..................((((.((((((..(((((..((((......))))......((((..(((..((((((.....)))))).....)))..))))..)))))..)))).)))))) ( -28.00)
>DroSim_CAF1 74069 120 - 1
AUUUGGCGAAAAUUCUCAGCGGUGCCUUAAUAAAGUCCUAGAACCAAAUCCAAUUGAUCUCCCUCGGCUAAAUGCACUCUGCAUUUUCCAUCCGGAGGAGUAACUUUUGUAAGUGCUUGU
..................((((.((((((..(((((........(((......)))..((((..(((..((((((.....)))))).....)))..))))..)))))..)))).)))))) ( -24.50)
>DroEre_CAF1 78717 120 - 1
AUUUCCAAUUUAUUCUCAUUGGUGCCUUAAUAAAGACCUAGCACCAAAUCUAAUUGAUCUCCUUCGGCUAAAUGCACUCUGCAUUUUCCAUCCGGAGGAGUAACUUUUGUAAGUGCUUGU
.....(((((........(((((((...............)))))))....)))))..(((((((((..((((((.....)))))).....)))))))))..((((....))))...... ( -29.96)
>DroYak_CAF1 77227 120 - 1
AUUUACCAAUAAUUCUCAGGGGUGCCUUAAUAAAGACCUAGAACCAAAUCUAAUUGAUCUCCUUCGGCUAAAUGCACUCUGCAUUUUCCAUCCGGAGGAGUAACUUUUGUAAGUGCUUGU
....(((.............)))((((((..((((...((((......))))......(((((((((..((((((.....)))))).....)))))))))...))))..)))).)).... ( -28.42)
>consensus
AUUUACCAAAAAUUCUCAGCGGUGCCUUAAUAAAGACCUAGAACCAAAUCCAAUUGAUCUCCCUCGGCUAAAUGCACUCUGCAUUUUCCAUCCGGAGGAGUAACUUUUGUAAGUGCUUGU
.......................((((((..((((...((((......))))......(((((((((..((((((.....)))))).....)))))))))...))))..)))).)).... (-24.17 = -24.93 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:35 2006