Locus 4237

Sequence ID	2R_DroMel_CAF1
Location	13,981,591 – 13,981,710
Length	119
Max. P	0.773396

overview

Window 0

Location	13,981,591 – 13,981,710
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.94
Mean single sequence MFE	-27.54
Consensus MFE	-21.01
Energy contribution	-22.05
Covariance contribution	1.04
Combinations/Pair	1.04
Mean z-score	-1.83
Structure conservation index	0.76
SVM decision value	0.54
SVM RNA-class probability	0.773396
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13981591 119 + 20766785
ACCACUGGCUUUUGGUGGACCAAACUUCAGACUUAUAGUCUCAACAAAAAUCUGUUUGGCCACCGCACAAAAUGUUUUCAAAUUAGCUUAUGGACAUGCAU-GAAAUCCCUCCAAAAGUU
.(((..((((...(((((.((((((...((((.....))))............)))))))))))(((.....))).........))))..)))........-.................. ( -25.56)
>DroSec_CAF1 19896 119 + 1
ACCAUGGGCUUUUGGUGGACCAAGCUCCAGACUUACAGUCUCAGCAAAAAUCUGUUUGGCCACCGCACAAAAUGUUUUCAAAUUAGCUUAUGGCCAUGCAU-GAAAUCCCUCCAAAAGUU
......(((((((((.((.....(((..((((.....)))).))).....(((((.((((((..((...................))...)))))).))).-))....)).))))))))) ( -32.81)
>DroSim_CAF1 18995 119 + 1
ACCACGGGCUUUUGGUGGACCAAACUCCAGACUUAGAGUCUCAACAAAAAUCUGUUUGGCCACCGCACAAAAUGUUUUCAAAUUAGCUUAUGGCCGUGCAU-GAAAUCCCUCCAAAAGUU
.....(((.(((((((((.((((((...((((.....))))............)))))))))))((((....((....)).....((.....)).))))..-)))).))).......... ( -30.66)
>DroEre_CAF1 20297 108 + 1
ACACAUGGCUUUUGGUGGACCAAAAUGUGGACU------------AAAAAUCUGUUUGACCAACGCACAAAAUGCUUUCAAAUUAGCUUAUGGCCAUGCAUGAAAAUCCCUCCAAAAGUU
......(((((((((.(((.....((((((.((------------(.......((((((.....(((.....)))..)))))).......)))))..)))).....)))..))))))))) ( -22.74)
>DroYak_CAF1 20319 119 + 1
ACCACUGGCUUUUGGUGUACCAAACUCGGGACUUAGAGUCGCAACAAAAAUCUGUUUGGCCAACGCACAAAAUGUUUUCAAAUUAGCUUAUGGCCAUGCAU-AAAAUCCCUCCAAAAGUU
......(((((((((.(..........(.(((.....))).)..........(((.((((((..((...................))...)))))).))).-.......).))))))))) ( -25.91)
>consensus
ACCACUGGCUUUUGGUGGACCAAACUCCAGACUUAGAGUCUCAACAAAAAUCUGUUUGGCCACCGCACAAAAUGUUUUCAAAUUAGCUUAUGGCCAUGCAU_GAAAUCCCUCCAAAAGUU
......(((((((((.((...........(((.....)))............(((.((((((..((...................))...)))))).)))........)).))))))))) (-21.01 = -22.05 +   1.04)

alignment

secondary structure

dotplot

Window 1

Location	13,981,591 – 13,981,710
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	87.94
Mean single sequence MFE	-32.92
Consensus MFE	-24.60
Energy contribution	-26.64
Covariance contribution	2.04
Combinations/Pair	1.08
Mean z-score	-1.65
Structure conservation index	0.75
SVM decision value	0.16
SVM RNA-class probability	0.611554
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13981591 119 - 20766785
AACUUUUGGAGGGAUUUC-AUGCAUGUCCAUAAGCUAAUUUGAAAACAUUUUGUGCGGUGGCCAAACAGAUUUUUGUUGAGACUAUAAGUCUGAAGUUUGGUCCACCAAAAGCCAGUGGU
.(((.((((..((((...-......))))....(((((..((....))..))).))(((((((((((((((((..((....))...))))))...)))))).))))).....)))).))) ( -31.50)
>DroSec_CAF1 19896 119 - 1
AACUUUUGGAGGGAUUUC-AUGCAUGGCCAUAAGCUAAUUUGAAAACAUUUUGUGCGGUGGCCAAACAGAUUUUUGCUGAGACUGUAAGUCUGGAGCUUGGUCCACCAAAAGCCCAUGGU
..(((((((..(((((..-..((.(((((((..(((((..((....))..))).)).)))))))..(((((..((((.......)))))))))..))..))))).)))))))........ ( -36.80)
>DroSim_CAF1 18995 119 - 1
AACUUUUGGAGGGAUUUC-AUGCACGGCCAUAAGCUAAUUUGAAAACAUUUUGUGCGGUGGCCAAACAGAUUUUUGUUGAGACUCUAAGUCUGGAGUUUGGUCCACCAAAAGCCCGUGGU
..(((((((..(((((..-..((..((((((..(((((..((....))..))).)).))))))...(((((((..((....))...)))))))..))..))))).)))))))........ ( -34.80)
>DroEre_CAF1 20297 108 - 1
AACUUUUGGAGGGAUUUUCAUGCAUGGCCAUAAGCUAAUUUGAAAGCAUUUUGUGCGUUGGUCAAACAGAUUUUU------------AGUCCACAUUUUGGUCCACCAAAAGCCAUGUGU
..(((((((..(((((...(((..((((((...(((((..((....))..))).))..))))))....(((....------------.)))..)))...))))).)))))))........ ( -25.90)
>DroYak_CAF1 20319 119 - 1
AACUUUUGGAGGGAUUUU-AUGCAUGGCCAUAAGCUAAUUUGAAAACAUUUUGUGCGUUGGCCAAACAGAUUUUUGUUGCGACUCUAAGUCCCGAGUUUGGUACACCAAAAGCCAGUGGU
.(((.((((.(((((((.-.(((.((((((...(((((..((....))..))).))..))))))(((((....)))))))).....)))))))...(((((....)))))..)))).))) ( -35.60)
>consensus
AACUUUUGGAGGGAUUUC_AUGCAUGGCCAUAAGCUAAUUUGAAAACAUUUUGUGCGGUGGCCAAACAGAUUUUUGUUGAGACUCUAAGUCUGGAGUUUGGUCCACCAAAAGCCAGUGGU
..(((((((..((((.........((((((...(((((..((....))..))).))..))))))..((((((((.....((((.....)))))))))))))))).)))))))........ (-24.60 = -26.64 +   2.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:57 2006