Locus 2291

Sequence ID	2L_DroMel_CAF1
Location	6,183,740 – 6,183,872
Length	132
Max. P	0.685128

overview

Window 7

Location	6,183,740 – 6,183,839
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	90.91
Mean single sequence MFE	-30.76
Consensus MFE	-27.66
Energy contribution	-27.98
Covariance contribution	0.32
Combinations/Pair	1.07
Mean z-score	-1.27
Structure conservation index	0.90
SVM decision value	0.32
SVM RNA-class probability	0.685128
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6183740 99 + 22407834
AGCCAGGUUUACUGGGUUAAGAGCCAAAUGUUGUUGCUCGCCGCAGCGGAAGGGUUCGGCAUGGGAAAGGCAUGGCAACCGAGGGAUAAGAGCAAACUU
.(((..((((.((.((((..(((((.....(((((((.....)))))))...)))))(.((((.......)))).))))).))))))..).))...... ( -30.20)
>DroSec_CAF1 20028 99 + 1
AGCCAGGUUUACUGGGUUAAGAGCCAAAUGUUGUUGCUCGCUGCAGCGGAAGGGUUCGGCAUGGGAAAGGCAUGGCAACCGAGGGAUAAGAGCAAACUU
.(((..((((.((.((((..(((((.....(((((((.....)))))))...)))))(.((((.......)))).))))).))))))..).))...... ( -30.80)
>DroSim_CAF1 29473 99 + 1
AGCCAGGUUUACUGGGUUAAGAGCCAAAUGUUGUUGCUCGCUGCAGCGGAAGGGUUCGGCAUGGGAAAGGCAUGGCAACCGAGGGAUAAGAGCAAACUU
.(((..((((.((.((((..(((((.....(((((((.....)))))))...)))))(.((((.......)))).))))).))))))..).))...... ( -30.80)
>DroEre_CAF1 19779 99 + 1
GGCCAGGUUUACUGGGUUAAGAGCCAAAUGGUGUUGCUCGCUGCAGCGGAAGGGUUCGGCCUGGGAAAAGCAGGGCAGCCAAGGGAUACGAGCCCACUU
.(((..((((.(..(((...(((((...(..((((((.....))))))..).))))).)))..)...))))..)))......(((.......))).... ( -35.40)
>DroYak_CAF1 30932 92 + 1
AGCCAGGUUUGCUGGGUUAAGAGCCAAAUGGUGUU-------GCAGCGGAAGGGUUCGGCAUGGGAAUGACAUGGCAACCAAGGGAUAAGAGCAGACUU
....(((((((((.(((.....)))......((((-------.(..(....)((((.(.((((.......)))).)))))..).))))..))))))))) ( -26.60)
>consensus
AGCCAGGUUUACUGGGUUAAGAGCCAAAUGUUGUUGCUCGCUGCAGCGGAAGGGUUCGGCAUGGGAAAGGCAUGGCAACCGAGGGAUAAGAGCAAACUU
.(((..((((.((.((((..(((((.....(((((((.....)))))))...)))))(.((((.......)))).))))).))))))..).))...... (-27.66 = -27.98 +   0.32)

alignment

secondary structure

dotplot

Window 8

Location	6,183,772 – 6,183,872
Length	100
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	88.50
Mean single sequence MFE	-30.16
Consensus MFE	-22.32
Energy contribution	-23.00
Covariance contribution	0.68
Combinations/Pair	1.19
Mean z-score	-1.53
Structure conservation index	0.74
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6183772 100 + 22407834
GUUGCUCGCCGCAGCGGAAGGGUUCGGCAUGGGAAAGGCAUGGCAACCGAGGGAUAAGAGCAAACUUAAGUCACUCCAGAUGUAAUGGAGCUGAAA-AAAC
.((((((.((....(....)((((.(.((((.......)))).)))))...))....)))))).......((((((((.......))))).)))..-.... ( -29.60)
>DroSec_CAF1 20060 101 + 1
GUUGCUCGCUGCAGCGGAAGGGUUCGGCAUGGGAAAGGCAUGGCAACCGAGGGAUAAGAGCAAACUUUGGUUACUCCAGAUGUAAUGGAGCUGAAUGAAAC
(((((.....)))))......(((((((................((((((((............))))))))..((((.......)))))))))))..... ( -27.60)
>DroSim_CAF1 29505 101 + 1
GUUGCUCGCUGCAGCGGAAGGGUUCGGCAUGGGAAAGGCAUGGCAACCGAGGGAUAAGAGCAAACUUUAGUCACUCCAGAUGUAAUGGAGCUGAAAGAAAC
.((((((((....)).....((((.(.((((.......)))).))))).........))))))..(((..((((((((.......))))).)))..))).. ( -28.60)
>DroEre_CAF1 19811 100 + 1
GUUGCUCGCUGCAGCGGAAGGGUUCGGCCUGGGAAAAGCAGGGCAGCCAAGGGAUACGAGCCCACUUCAGUUCCUGCAGAUGUAAUGGAGCUGAAA-AAAC
(((((.....)))))....(((((((.(((.((....((...))..))..)))...)))))))..((((((((((((....)))..))))))))).-.... ( -37.70)
>DroYak_CAF1 30964 94 + 1
GUU-------GCAGCGGAAGGGUUCGGCAUGGGAAUGACAUGGCAACCAAGGGAUAAGAGCAGACUUCAGUUCCUCCAGAUGUAAUGGAGCUGAAAAAAAC
.((-------((..(....)((((.(.((((.......)))).)))))...........))))..(((((((((............)))))))))...... ( -27.30)
>consensus
GUUGCUCGCUGCAGCGGAAGGGUUCGGCAUGGGAAAGGCAUGGCAACCGAGGGAUAAGAGCAAACUUCAGUUACUCCAGAUGUAAUGGAGCUGAAA_AAAC
.((((((.......(....)((((.(.((((.......)))).))))).........))))))..(((((...(((((.......))))))))))...... (-22.32 = -23.00 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:12 2006