Locus 3766

Sequence ID	3L_DroMel_CAF1
Location	10,893,331 – 10,893,428
Length	97
Max. P	0.854582

overview

Window 5

Location	10,893,331 – 10,893,428
Length	97
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	87.09
Mean single sequence MFE	-31.30
Consensus MFE	-27.14
Energy contribution	-27.42
Covariance contribution	0.28
Combinations/Pair	1.09
Mean z-score	-1.68
Structure conservation index	0.87
SVM decision value	0.80
SVM RNA-class probability	0.854582
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10893331 97 + 23771897
-----CCGCCUUUCUACUUCG---UCGUCUCUGGGCGGGUGUUUCGCAUAAAAAAUGUAUGCGAAAUCCCUGCACUGCAGCUGCAGCAUUACGUGGUUAGCGA-AU
-----.(((.(..((((....---..........(((((..(((((((((.......)))))))))..))))).((((....))))......))))..)))).-.. ( -33.40)
>DroPse_CAF1 23733 94 + 1
------UGGCUGUCUGGU------UCUUCUUGUGGCGGGUGUUUCGCAUAAAAAAUGUAUACGAAAUCCCUGCACUGCAGCUGCAGCAUUACGUGGUUAGCGCUAU
------........((((------.((..(..(((((((..(((((.(((.......))).)))))..))))).((((....)))).....))..)..)).)))). ( -25.70)
>DroSec_CAF1 25687 102 + 1
UUUCUCCGCCGUUCUGCUUCG---UCGUCUCUGGGCGGGUGUUUCGCAUAAAAAAUGUAUGCGAAAUCCCUGCACUGCAGCUGCAGCAUUACGUGGUUAGCGA-AU
.....((((.((..((((..(---(.(.((.((((((((..(((((((((.......)))))))))..))))).))).))).))))))..)))))).......-.. ( -33.70)
>DroSim_CAF1 22271 102 + 1
UUUCUCCGCCUUUCUCCUUCG---UCGUCUCUGGGCGGGUGUUUCGCAUAAAAAAUGUAUGCGAAAUCCCUGCACUGCAGCUGCAGCAUUACGUGGUUAGCGA-AU
......(((......((..((---(.........(((((..(((((((((.......)))))))))..))))).((((....))))....))).))...))).-.. ( -31.90)
>DroEre_CAF1 24660 102 + 1
UUUCCCCACUUUUCUC---CGCCUUCGUCUCUGGGCGGGUGUUUCGCAUAAAAAAUGUAUGCGAAAUCCCUGCACUGCAGCUGCAGCAUUACGUGGUUAGCGA-AU
.....((((.......---.((((........))))(((.((((((((((.......)))))))))))))....((((....))))......)))).......-.. ( -31.80)
>consensus
UUUC_CCGCCUUUCUCCUUCG___UCGUCUCUGGGCGGGUGUUUCGCAUAAAAAAUGUAUGCGAAAUCCCUGCACUGCAGCUGCAGCAUUACGUGGUUAGCGA_AU
.....((((.........................(((((..(((((((((.......)))))))))..))))).((((....))))......)))).......... (-27.14 = -27.42 +   0.28)

alignment

secondary structure

dotplot

Window 6

Location	10,893,331 – 10,893,428
Length	97
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	87.09
Mean single sequence MFE	-29.22
Consensus MFE	-25.24
Energy contribution	-25.16
Covariance contribution	-0.08
Combinations/Pair	1.14
Mean z-score	-1.53
Structure conservation index	0.86
SVM decision value	0.39
SVM RNA-class probability	0.715725
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10893331 97 - 23771897
AU-UCGCUAACCACGUAAUGCUGCAGCUGCAGUGCAGGGAUUUCGCAUACAUUUUUUAUGCGAAACACCCGCCCAGAGACGA---CGAAGUAGAAAGGCGG-----
..-.((((.....(((...(((((....)))))((.((..(((((((((.......)))))))))..)).))......))).---(......)...)))).----- ( -28.50)
>DroPse_CAF1 23733 94 - 1
AUAGCGCUAACCACGUAAUGCUGCAGCUGCAGUGCAGGGAUUUCGUAUACAUUUUUUAUGCGAAACACCCGCCACAAGAAGA------ACCAGACAGCCA------
...(.(((...........(((((....)))))((.((..(((((((((.......)))))))))..)).))..........------.......)))).------ ( -23.50)
>DroSec_CAF1 25687 102 - 1
AU-UCGCUAACCACGUAAUGCUGCAGCUGCAGUGCAGGGAUUUCGCAUACAUUUUUUAUGCGAAACACCCGCCCAGAGACGA---CGAAGCAGAACGGCGGAGAAA
.(-(((((.....(((...(((((....)))))((.((..(((((((((.......)))))))))..)).))......))).---(......)...)))))).... ( -30.50)
>DroSim_CAF1 22271 102 - 1
AU-UCGCUAACCACGUAAUGCUGCAGCUGCAGUGCAGGGAUUUCGCAUACAUUUUUUAUGCGAAACACCCGCCCAGAGACGA---CGAAGGAGAAAGGCGGAGAAA
.(-(((((.....(((...(((((....)))))((.((..(((((((((.......)))))))))..)).))......))).---(....).....)))))).... ( -32.20)
>DroEre_CAF1 24660 102 - 1
AU-UCGCUAACCACGUAAUGCUGCAGCUGCAGUGCAGGGAUUUCGCAUACAUUUUUUAUGCGAAACACCCGCCCAGAGACGAAGGCG---GAGAAAAGUGGGGAAA
..-.......((((.....(((((....)))))...((..(((((((((.......)))))))))..))((((..........))))---.......))))..... ( -31.40)
>consensus
AU_UCGCUAACCACGUAAUGCUGCAGCUGCAGUGCAGGGAUUUCGCAUACAUUUUUUAUGCGAAACACCCGCCCAGAGACGA___CGAAGCAGAAAGGCGG_GAAA
....((((...........(((((....)))))((.((..(((((((((.......)))))))))..)).))........................))))...... (-25.24 = -25.16 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:10 2006