Locus 7717

Sequence ID	3L_DroMel_CAF1
Location	20,614,631 – 20,614,789
Length	158
Max. P	0.996834

overview

Window 2

Location	20,614,631 – 20,614,750
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.48
Mean single sequence MFE	-31.18
Consensus MFE	-27.46
Energy contribution	-26.98
Covariance contribution	-0.48
Combinations/Pair	1.09
Mean z-score	-1.46
Structure conservation index	0.88
SVM decision value	0.82
SVM RNA-class probability	0.858245
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20614631 119 + 23771897
ACAGCGGCGAAACUUUUCUGGGUUAAUUUUCAUGUUUUUCAAUACAAUUUUCAGCAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGGCGG-GCGGCAAAUUAAUCAAGCACA
...((.((........((((.(..((((....((.....))....))))..)..))))....(((((((((((((((.....))))).))))))))))-)).))................ ( -30.80)
>DroSec_CAF1 59400 119 + 1
GCAGCGGCGAAACUUUUCUGGGUUAAUUUUCAUGUUUUUCAAUACAAUUUUCAGCAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGGCGG-GCGGCAAAUUAAUCAAGCACA
...((.((........((((.(..((((....((.....))....))))..)..))))....(((((((((((((((.....))))).))))))))))-)).))................ ( -30.80)
>DroAna_CAF1 81372 120 + 1
GCGGCUAUGAAACUUUUCUGGGUUAAUUUUCAUGUUUUUCAAUACAAUUUUCAGCAGAUUUGCUGUCAAGGUUGGAAUAAUUUUCCGAGUCUUGGCGGGGCUGCAAAUUAAUCAAGCACA
...(((..(((....)))..(((((((((...(((........))).......((((.....(((((((((((((((.....)))))).)))))))))..))))))))))))).)))... ( -31.70)
>DroSim_CAF1 54283 119 + 1
GCAGCGGCGAAACUUUUCUGGGUUAAUUUUCAUGUUUUUCAAUACAAUUUUCAGCAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGGCGG-GCGGCAAAUUAAUCAAGCACA
...((.((........((((.(..((((....((.....))....))))..)..))))....(((((((((((((((.....))))).))))))))))-)).))................ ( -30.80)
>DroEre_CAF1 51920 119 + 1
GCGGCGGCGAAACUUUUCUGGGUUAAUUUUCAUGUUUUUCAAUACAAUUUUCAACAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGACGG-GCGGCAAAUUAAUCAGGCACA
((.((((((((.....((((((.......)).(((........)))........))))))))))(((((((((((((.....))))).))))))))..-)).))................ ( -31.80)
>consensus
GCAGCGGCGAAACUUUUCUGGGUUAAUUUUCAUGUUUUUCAAUACAAUUUUCAGCAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGGCGG_GCGGCAAAUUAAUCAAGCACA
...((...(((....)))..(((((((((.(.(((........)))................(((((((((((((((.....))))).))))))))))....).)))))))))..))... (-27.46 = -26.98 +  -0.48)

alignment

secondary structure

dotplot

Window 3

Location	20,614,671 – 20,614,789
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.94
Mean single sequence MFE	-29.53
Consensus MFE	-25.78
Energy contribution	-25.50
Covariance contribution	-0.28
Combinations/Pair	1.10
Mean z-score	-2.19
Structure conservation index	0.87
SVM decision value	2.76
SVM RNA-class probability	0.996834
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20614671 118 + 23771897
AAUACAAUUUUCAGCAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGGCGG-GCGGCAAAUUAAUCAAGCACACGCAUAAUAAAAACA-AAGAACAAAUUAGUCGGAUGCCCU
.........(((.((.(((((((((((((((((((((.....))))).))))))))))-(((..................)))............-.....)))))).)).)))...... ( -29.37)
>DroSec_CAF1 59440 118 + 1
AAUACAAUUUUCAGCAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGGCGG-GCGGCAAAUUAAUCAAGCACACGCAUAAUAAAAACA-AAGAACAAAUUAGUCGGAUGGCCU
.........(((.((.(((((((((((((((((((((.....))))).))))))))))-(((..................)))............-.....)))))).)).)))...... ( -29.37)
>DroAna_CAF1 81412 120 + 1
AAUACAAUUUUCAGCAGAUUUGCUGUCAAGGUUGGAAUAAUUUUCCGAGUCUUGGCGGGGCUGCAAAUUAAUCAAGCACACGCAUAACAAAAACAAAAGUACAAAUUGGAGGGAUGACCU
....((((((...((((.....(((((((((((((((.....)))))).)))))))))..))))...........((....))...................)))))).(((.....))) ( -29.70)
>DroSim_CAF1 54323 118 + 1
AAUACAAUUUUCAGCAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGGCGG-GCGGCAAAUUAAUCAAGCACACGCAUAAUAAAAACA-AAGAACAAAUUAGUCGGAUGGCCU
.........(((.((.(((((((((((((((((((((.....))))).))))))))))-(((..................)))............-.....)))))).)).)))...... ( -29.37)
>DroEre_CAF1 51960 116 + 1
AAUACAAUUUUCAACAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGACGG-GCGGCAAAUUAAUCAGGCACACGCAUAA--AAAACA-AAGAACAAAUUAGACGGAUGGCCU
................(((((((((((((((((((((.....))))).))))))))..-..))))))))....((((...((..(((--......-.........)))..))....)))) ( -29.86)
>consensus
AAUACAAUUUUCAGCAGAUUUGCUGUCAAGGCUGGAAUAAUUUUCCAUGUCUUGGCGG_GCGGCAAAUUAAUCAAGCACACGCAUAAUAAAAACA_AAGAACAAAUUAGUCGGAUGGCCU
.........(((..(.(((((((((((((((((((((.....))))).)))))))))).(((((...........))...)))..................)))))).)..)))...... (-25.78 = -25.50 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:58 2006