Locus 4495

Sequence ID	2R_DroMel_CAF1
Location	14,768,772 – 14,768,864
Length	92
Max. P	0.873504

overview

Window 7

Location	14,768,772 – 14,768,864
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	81.61
Mean single sequence MFE	-23.02
Consensus MFE	-12.46
Energy contribution	-14.66
Covariance contribution	2.20
Combinations/Pair	1.00
Mean z-score	-2.25
Structure conservation index	0.54
SVM decision value	0.53
SVM RNA-class probability	0.772292
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14768772 92 + 20766785
UGACAGUUUCUAGAAGUAAGCUAAAAAGUAUGCAACACAAUUGGUCAGCCGAAGAUAUAAGCGAGAGCAGUGCCAAAAAAGUGUAGCAUACU
....((((((.....).)))))....(((((((.((((..((((....))))........((....))............)))).))))))) ( -23.10)
>DroSec_CAF1 3635 91 + 1
UGACGUUUUUUAGAAGUAAGCUAAAAAGUAUGCAACACAAUUGGACAGCCGAAAGCAUCUGCGAGUGCAGUGCCAAAA-AAUGCAGCAUACU
......(((((((.......)))))))((((((.......((((....))))..(((.((((....))))))).....-......)))))). ( -22.00)
>DroSim_CAF1 10131 91 + 1
UGACGGUUUUUAGAAGUAAGCUAAAAAGUAUGCAACACAAUUGGUCAGCCGAAAGCAUCUGCGAGUGCAGUGCCAAAA-AGUGUAGCAUACU
......(((((((.......)))))))((((((.((((..((((....))))..(((.((((....))))))).....-.)))).)))))). ( -28.30)
>DroEre_CAF1 2498 92 + 1
GGACAGUUUUUAGAAGCGCGUCCAAAAGUAGGCAACACAAUUUGUCAGCCGAAAAAGCCUGCAUGUGCAGUACUAAAAAGGUAUAGCAUACU
((((.((((....))))..))))....((((((.......................)))))).(((((.(((((.....))))).))))).. ( -25.20)
>DroYak_CAF1 9728 92 + 1
UGGCAGUUUUUAGAUGCAUGCCCAAAAGUAGGCAACACAAUUUUUCAGCCGAAUAAAUCUGCAUGUGCAGUCCUAAAAAAGUAUAGCAUACU
..((..(((((((.((((((((........)))..............((.((.....)).))..)))))...)))))))......))..... ( -16.50)
>consensus
UGACAGUUUUUAGAAGUAAGCUAAAAAGUAUGCAACACAAUUGGUCAGCCGAAAAAAUCUGCGAGUGCAGUGCCAAAAAAGUGUAGCAUACU
..........................(((((((.((((..((((....))))......((((....))))..........)))).))))))) (-12.46 = -14.66 +   2.20)

alignment

secondary structure

dotplot

Window 8

Location	14,768,772 – 14,768,864
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	81.61
Mean single sequence MFE	-22.17
Consensus MFE	-14.72
Energy contribution	-15.00
Covariance contribution	0.28
Combinations/Pair	1.25
Mean z-score	-2.12
Structure conservation index	0.66
SVM decision value	0.88
SVM RNA-class probability	0.873504
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14768772 92 - 20766785
AGUAUGCUACACUUUUUUGGCACUGCUCUCGCUUAUAUCUUCGGCUGACCAAUUGUGUUGCAUACUUUUUAGCUUACUUCUAGAAACUGUCA
.((((((.((((....((((((..((....))......(....).)).))))..)))).))))))(((((((.......)))))))...... ( -20.00)
>DroSec_CAF1 3635 91 - 1
AGUAUGCUGCAUU-UUUUGGCACUGCACUCGCAGAUGCUUUCGGCUGUCCAAUUGUGUUGCAUACUUUUUAGCUUACUUCUAAAAAACGUCA
.((((((.((((.-..((((((((((....))))..((.....)))).))))..)))).))))))(((((((.......)))))))...... ( -25.50)
>DroSim_CAF1 10131 91 - 1
AGUAUGCUACACU-UUUUGGCACUGCACUCGCAGAUGCUUUCGGCUGACCAAUUGUGUUGCAUACUUUUUAGCUUACUUCUAAAAACCGUCA
.((((((.((((.-..((((((((((....))))..((.....)))).))))..)))).))))))(((((((.......)))))))...... ( -26.40)
>DroEre_CAF1 2498 92 - 1
AGUAUGCUAUACCUUUUUAGUACUGCACAUGCAGGCUUUUUCGGCUGACAAAUUGUGUUGCCUACUUUUGGACGCGCUUCUAAAAACUGUCC
.((((((((........))))).)))....((((........(((.((((.....)))))))...(((((((......))))))).)))).. ( -18.30)
>DroYak_CAF1 9728 92 - 1
AGUAUGCUAUACUUUUUUAGGACUGCACAUGCAGAUUUAUUCGGCUGAAAAAUUGUGUUGCCUACUUUUGGGCAUGCAUCUAAAAACUGCCA
......(((........)))..((((....))))........(((.........((((((((((....)))))).)))).........))). ( -20.67)
>consensus
AGUAUGCUACACUUUUUUGGCACUGCACUCGCAGAUGUUUUCGGCUGACCAAUUGUGUUGCAUACUUUUUAGCUUACUUCUAAAAACUGUCA
(((((((.((((....(((((.((((....)))).........)))))......)))).))))))).......................... (-14.72 = -15.00 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:17 2006