Locus 5733

Sequence ID	3L_DroMel_CAF1
Location	15,607,863 – 15,608,063
Length	200
Max. P	0.963553

overview

Window 0

Location	15,607,863 – 15,607,983
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-33.60
Consensus MFE	-31.51
Energy contribution	-31.76
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-1.47
Structure conservation index	0.94
SVM decision value	1.31
SVM RNA-class probability	0.940715
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15607863 120 + 23771897
GCGGAAAAUGGGAACGUGCACCAUGGUGCAAGGGAGCCGACAAUGCGGCGCCACUGCAUACAAUUGAGCUUAAUAUUGAAAACUUUCGAGUAUCUUAAUUAAAGGUUAAGUGUGUGUGAU
((((...(((....)))((((....))))...((.((((......)))).)).))))(((((.....(((((((.(((((....)))))....(((.....)))))))))).)))))... ( -33.30)
>DroSec_CAF1 31111 113 + 1
GCGGAAAAUGGGAACGUGCA-------GCAAGGGAGCCGACAAUGCGGCGCCACUGCAUACAAUUGAGCUUAAUAUUGAAAACUUUCGAGUAUCUUAAUUAAAGGUUAAGUGUGUGUGAG
((.(...(((....))).).-------)).((((.((((......)))).)).))(((((((.((((.(((...(((((..(((....)))...)))))..))).)))).)))))))... ( -29.10)
>DroSim_CAF1 31126 120 + 1
GCGGAAAAUGGGAACGUGCACCAUGGUGCAAGGGAGCCGACAAUGCGGCGCCACUGCAUACAAUUGAGCUUAAUAUUGAAAACUUUCGAGUAUCUUAAUUAAAGGUUAAGUGUGUGUGAG
((((...(((....)))((((....))))...((.((((......)))).)).))))(((((.....(((((((.(((((....)))))....(((.....)))))))))).)))))... ( -33.30)
>DroEre_CAF1 30996 120 + 1
GCGGAAAAUGGGAACGUGCACCAUGGUGCGAGGGCGCCGACAAUGCGGCGCCACUGCAUACAAUUGAGCUUAAUAUUGAAAACUUUCGAGUAUCUUAAUUAAAGGUUAAGUGUGUGUGAG
((((...(((....)))((((....))))...(((((((......))))))).))))(((((.....(((((((.(((((....)))))....(((.....)))))))))).)))))... ( -39.00)
>DroYak_CAF1 33253 120 + 1
GCGGAAAAUGGGAACGUGCACCAUGGUGCAAGGGAGCCGACAAUGCGGCGCCACUGCAUACAAUUGAGCUUAAUAUUGAAAACUUUCGAGUAUCUUAAUUAAAGGUUAAGUGUGUGUGAG
((((...(((....)))((((....))))...((.((((......)))).)).))))(((((.....(((((((.(((((....)))))....(((.....)))))))))).)))))... ( -33.30)
>consensus
GCGGAAAAUGGGAACGUGCACCAUGGUGCAAGGGAGCCGACAAUGCGGCGCCACUGCAUACAAUUGAGCUUAAUAUUGAAAACUUUCGAGUAUCUUAAUUAAAGGUUAAGUGUGUGUGAG
((((...(((....)))((((....))))...((.((((......)))).)).))))(((((.....(((((((.(((((....)))))....(((.....)))))))))).)))))... (-31.51 = -31.76 +   0.25)

alignment

secondary structure

dotplot

Window 1

Location	15,607,943 – 15,608,063
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.67
Mean single sequence MFE	-16.63
Consensus MFE	-15.44
Energy contribution	-15.64
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.76
Structure conservation index	0.93
SVM decision value	1.55
SVM RNA-class probability	0.963553
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15607943 120 - 23771897
CGUUUCAAUUGCCCACUUAGCAGCCUUUCAACACAAAUUACCAUAAUUCGAGCUCUUUCUCCAUUCUCUUUUUGAAAAGGAUCACACACACUUAACCUUUAAUUAAGAUACUCGAAAGUU
........((((.......)))).......................((((((.......(((.((.((.....)).))))).........(((((.......)))))...)))))).... ( -11.80)
>DroSec_CAF1 31184 120 - 1
CGUUUCAAUUGCCCACUUAGCAGCCUUUCAACACAAAUUACCAUAAUUCGAGCUCUUUCUCCAUUCUCUUUUUGAAAAGGCUCACACACACUUAACCUUUAAUUAAGAUACUCGAAAGUU
........((((.......)))).(((((....................((((..((((..............))))..)))).......(((((.......)))))......))))).. ( -17.14)
>DroSim_CAF1 31206 120 - 1
CGUUUCAAUUGCCCACUUAGCAGCCUUUCAACACAAAUUACCAUAAUUCGAGCUCUUUCUCCAUUCUCUUUUUGAAAAGGCUCACACACACUUAACCUUUAAUUAAGAUACUCGAAAGUU
........((((.......)))).(((((....................((((..((((..............))))..)))).......(((((.......)))))......))))).. ( -17.14)
>DroEre_CAF1 31076 120 - 1
CGUUUCAAUUGCCCACUUAGCAGCCUUUCAGCACAAAUUACCAUAAUUCGAGCUUUUUCUCCAUUCUCUUUUUGAAAAGGCUCACACACACUUAACCUUUAAUUAAGAUACUCGAAAGUU
........((((.......)))).(((((....................((((((((((..............)))))))))).......(((((.......)))))......))))).. ( -19.94)
>DroYak_CAF1 33333 120 - 1
CGAUUCAAUUGCCCACUUAGCAGCCUUUCAACACAAAUUACCAUAAUUCGAGCUCUUUCUCCAUUCUCUUUUUGAAAAGGCUCACACACACUUAACCUUUAAUUAAGAUACUCGAAAGUU
........((((.......)))).(((((....................((((..((((..............))))..)))).......(((((.......)))))......))))).. ( -17.14)
>consensus
CGUUUCAAUUGCCCACUUAGCAGCCUUUCAACACAAAUUACCAUAAUUCGAGCUCUUUCUCCAUUCUCUUUUUGAAAAGGCUCACACACACUUAACCUUUAAUUAAGAUACUCGAAAGUU
........((((.......)))).(((((....................(((((.((((..............)))).))))).......(((((.......)))))......))))).. (-15.44 = -15.64 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:05 2006