Locus 1181

Sequence ID	X_DroMel_CAF1
Location	3,519,349 – 3,519,445
Length	96
Max. P	0.985133

overview

Window 0

Location	3,519,349 – 3,519,445
Length	96
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	84.39
Mean single sequence MFE	-23.10
Consensus MFE	-16.62
Energy contribution	-16.38
Covariance contribution	-0.24
Combinations/Pair	1.12
Mean z-score	-1.82
Structure conservation index	0.72
SVM decision value	0.36
SVM RNA-class probability	0.706021
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3519349 96 + 22224390
UGAUAAAUACAAUUGCGUUUGCUUGUUUGUGUUUCGACUU-UUUUCUUGGGUUUUGUCAACGCGACUUGGCUCACGUUGGCAAAACAAAGUGCAAAA----
....((((((((..((....))....))))))))......-....(((..((((((((((((.((......)).)))))))))))).))).......---- ( -24.50)
>DroSec_CAF1 27713 96 + 1
UGAUAAAUAAAAUUGCGUUUGUGCUUUUGUGCUUCGACUU-UUUUCUUGGCUUUUGUCAACGCGACUUGGCUCUCGUUGACAAAACAAAGUGCAAAA----
.................((((..((((.(((((..((...-...))..))).((((((((((.((......)).))))))))))))))))..)))).---- ( -26.10)
>DroSim_CAF1 28145 94 + 1
UGAUAAAUAAAAUUGCGUUU--GCUUUUGUGCUUCGACUU-UUUUCUUGGCUUUUGUCAACGCGACUUGGCUCACGUUGACAAAACAAAGUGCAAAA----
.................(((--(((((((((((..((...-...))..))).((((((((((.((......)).)))))))))))))))).))))).---- ( -25.60)
>DroEre_CAF1 31535 89 + 1
UGAUA----AAAUUGCGC--------UUGUGUUUCAACUCUUUUUCUUUGAUUUUGUGAACGCGACUUGGCUCACGUUGACAAAACAAAGUGCAAAACAAA
.....----...((((((--------((((......))..........((.((((((.((((.((......)).)))).))))))))))))))))...... ( -20.70)
>DroYak_CAF1 26561 101 + 1
UGAUAAAUAAAAUUGCGUUUGCUUGUUUGUGUUUCAACUUUUUUUCUUUGCUUUUGUCAACGCGACUUGGCUCACAUUGGCAAAACAAGGUGCAAAACAAA
(((...(((((...((....))...)))))...)))..((((...(((((.(((((((((.(.((......)).).))))))))))))))...)))).... ( -18.60)
>consensus
UGAUAAAUAAAAUUGCGUUUG_GCGUUUGUGUUUCGACUU_UUUUCUUGGCUUUUGUCAACGCGACUUGGCUCACGUUGACAAAACAAAGUGCAAAA____
............((((..........(((.....)))........(((.(.(((((((((((.((......)).)))))))))))).))).))))...... (-16.62 = -16.38 +  -0.24)

alignment

secondary structure

dotplot

Window 1

Location	3,519,349 – 3,519,445
Length	96
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	84.39
Mean single sequence MFE	-22.48
Consensus MFE	-17.88
Energy contribution	-18.48
Covariance contribution	0.60
Combinations/Pair	1.08
Mean z-score	-2.56
Structure conservation index	0.80
SVM decision value	2.00
SVM RNA-class probability	0.985133
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3519349 96 - 22224390
----UUUUGCACUUUGUUUUGCCAACGUGAGCCAAGUCGCGUUGACAAAACCCAAGAAAA-AAGUCGAAACACAAACAAGCAAACGCAAUUGUAUUUAUCA
----(((((.(((((((((((.((((((((......)))))))).))))))........)-))))))))).....((((((....))..))))........ ( -21.00)
>DroSec_CAF1 27713 96 - 1
----UUUUGCACUUUGUUUUGUCAACGAGAGCCAAGUCGCGUUGACAAAAGCCAAGAAAA-AAGUCGAAGCACAAAAGCACAAACGCAAUUUUAUUUAUCA
----..((((.(((.((((((((((((.((......)).))))))).))))).)))....-........((......))......))))............ ( -21.70)
>DroSim_CAF1 28145 94 - 1
----UUUUGCACUUUGUUUUGUCAACGUGAGCCAAGUCGCGUUGACAAAAGCCAAGAAAA-AAGUCGAAGCACAAAAGC--AAACGCAAUUUUAUUUAUCA
----..((((.(((.(((((((((((((((......)))))))))).))))).)))....-........((......))--....))))............ ( -25.50)
>DroEre_CAF1 31535 89 - 1
UUUGUUUUGCACUUUGUUUUGUCAACGUGAGCCAAGUCGCGUUCACAAAAUCAAAGAAAAAGAGUUGAAACACAA--------GCGCAAUUU----UAUCA
......((((.(((((((((((.(((((((......))))))).)))))).))))).......(((........)--------))))))...----..... ( -22.80)
>DroYak_CAF1 26561 101 - 1
UUUGUUUUGCACCUUGUUUUGCCAAUGUGAGCCAAGUCGCGUUGACAAAAGCAAAGAAAAAAAGUUGAAACACAAACAAGCAAACGCAAUUUUAUUUAUCA
.(((((((((.(.(((((((..((((((((......))))))))...))))))).).......(((........)))..))))).))))............ ( -21.40)
>consensus
____UUUUGCACUUUGUUUUGUCAACGUGAGCCAAGUCGCGUUGACAAAAGCCAAGAAAA_AAGUCGAAACACAAAAAA_CAAACGCAAUUUUAUUUAUCA
......((((.(((.(((((((((((((((......)))))))))))))).).))).......((....))..............))))............ (-17.88 = -18.48 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:11 2006