Locus 8017

Sequence ID	3L_DroMel_CAF1
Location	21,127,485 – 21,127,586
Length	101
Max. P	0.983897

overview

Window 6

Location	21,127,485 – 21,127,586
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	94.65
Mean single sequence MFE	-28.84
Consensus MFE	-22.87
Energy contribution	-23.47
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.84
Structure conservation index	0.79
SVM decision value	1.96
SVM RNA-class probability	0.983897
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21127485 101 + 23771897
CGCGGCUCUCUGCCAAAUGGCAGAGUGAAAACUAUUCGCUUUGCUUACGAAUUAGAGCACAAAACAGAAAGCCAACCAAAACAGAGCGGCAAACCGAAAGG
.((.((((((((((....))))))(((((.....)))))..(((((........)))))........................)))).))...((....)) ( -31.70)
>DroSec_CAF1 178197 101 + 1
CGCGACUCUCUGCCAAAUGGCAGAGUGAAAACUAUUGGCUUUGCUUACGAAUUAGAGCACAAAACAGAAAGCCAACCAAAACAGAGCGGCAAGCCGAAAGG
(((..(.(((((((....))))))).).......((((((((((((........)))).(......)))))))))..........))).....((....)) ( -32.00)
>DroSim_CAF1 89889 101 + 1
CGCGGCUCUCUGACAAAUGGCAGAGUGAAAACUAUUGGCUUUGCUUACGAAUUAGAGCACAAAACAGAAAGCCAACCAAAACAGAGCGGCAAGCCGAAAGG
.((.((((((((.(....).)))(((....))).((((((((((((........)))).(......))))))))).......))))).))...((....)) ( -29.20)
>DroEre_CAF1 100595 101 + 1
CGCGGCUCUCUCACAAAUGCCAGAGUGAAAACUAUUCGCUUUGCUUACGAAUUAGAGCACAAAACAGAAAGCCAACCAAAACAGAGCGGCAAGCCGAAAGA
.((.(((((.........((.((((((((.....))))))))((((........))))............))..........))))).))....(....). ( -23.01)
>DroYak_CAF1 71548 100 + 1
CGCGGCUCUCUCAGCGCUGGCAGAGU-AAAACUAUUCGCUUUGCUUACGAAUUAGAGCACAAAACAGAAAGCCAACCAAAACAGAGCGGCAAGCCGAAAGG
.((.(((((........((((.((((-(....)))))((((((.........))))))............))))........))))).))...((....)) ( -28.29)
>consensus
CGCGGCUCUCUGACAAAUGGCAGAGUGAAAACUAUUCGCUUUGCUUACGAAUUAGAGCACAAAACAGAAAGCCAACCAAAACAGAGCGGCAAGCCGAAAGG
.((.(((((........(((((((((.((.....)).)))))((((........))))............))))........))))).))...((....)) (-22.87 = -23.47 +   0.60)

alignment

secondary structure

dotplot

Window 7

Location	21,127,485 – 21,127,586
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	94.65
Mean single sequence MFE	-27.76
Consensus MFE	-25.38
Energy contribution	-25.90
Covariance contribution	0.52
Combinations/Pair	1.12
Mean z-score	-1.09
Structure conservation index	0.91
SVM decision value	-0.03
SVM RNA-class probability	0.516395
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21127485 101 - 23771897
CCUUUCGGUUUGCCGCUCUGUUUUGGUUGGCUUUCUGUUUUGUGCUCUAAUUCGUAAGCAAAGCGAAUAGUUUUCACUCUGCCAUUUGGCAGAGAGCCGCG
.....(((((.((((..(......)..)))).(((.(((((((...(......)...)))))))))).........(((((((....)))))))))))).. ( -30.10)
>DroSec_CAF1 178197 101 - 1
CCUUUCGGCUUGCCGCUCUGUUUUGGUUGGCUUUCUGUUUUGUGCUCUAAUUCGUAAGCAAAGCCAAUAGUUUUCACUCUGCCAUUUGGCAGAGAGUCGCG
...........((.((((.......(((((((((((.....((......)).....)).))))))))).........((((((....)))))))))).)). ( -29.30)
>DroSim_CAF1 89889 101 - 1
CCUUUCGGCUUGCCGCUCUGUUUUGGUUGGCUUUCUGUUUUGUGCUCUAAUUCGUAAGCAAAGCCAAUAGUUUUCACUCUGCCAUUUGUCAGAGAGCCGCG
.....(((((...............(((((((((((.....((......)).....)).)))))))))........(((((.(....).)))))))))).. ( -24.80)
>DroEre_CAF1 100595 101 - 1
UCUUUCGGCUUGCCGCUCUGUUUUGGUUGGCUUUCUGUUUUGUGCUCUAAUUCGUAAGCAAAGCGAAUAGUUUUCACUCUGGCAUUUGUGAGAGAGCCGCG
.....(((((.((((..(......)..)))).(((.(((((((...(......)...)))))))))).........((((.((....)).))))))))).. ( -26.60)
>DroYak_CAF1 71548 100 - 1
CCUUUCGGCUUGCCGCUCUGUUUUGGUUGGCUUUCUGUUUUGUGCUCUAAUUCGUAAGCAAAGCGAAUAGUUUU-ACUCUGCCAGCGCUGAGAGAGCCGCG
.....((((((....(((.((.(((((.(((((((.(((((((...(......)...)))))))))).))))..-.....))))).)).))).)))))).. ( -28.00)
>consensus
CCUUUCGGCUUGCCGCUCUGUUUUGGUUGGCUUUCUGUUUUGUGCUCUAAUUCGUAAGCAAAGCGAAUAGUUUUCACUCUGCCAUUUGUCAGAGAGCCGCG
.....(((((.((((..(......)..)))).....(((((((...(......)...)))))))............(((((((....)))))))))))).. (-25.38 = -25.90 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:59 2006