Locus 8002

Sequence ID	3R_DroMel_CAF1
Location	21,466,567 – 21,466,662
Length	95
Max. P	0.998458

overview

Window 9

Location	21,466,567 – 21,466,662
Length	95
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	90.76
Mean single sequence MFE	-25.52
Consensus MFE	-24.95
Energy contribution	-24.98
Covariance contribution	0.03
Combinations/Pair	1.04
Mean z-score	-1.94
Structure conservation index	0.98
SVM decision value	3.11
SVM RNA-class probability	0.998458
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21466567 95 + 27905053
UUUG-----UUGUUGUU---GC--UGUUCUAAAUACGCCAAAAGUUGCUUUCAGGGCAUAAAU----AUAUGUCUUUAGUGUGGCAUGUCUGGUUGCGUUUUUGGAACU----
....-----........---..--.((((((((.((((.(..((.((((...((((((((...----.))))))))......))))...))..).)))).)))))))).---- ( -25.50)
>DroSec_CAF1 73349 95 + 1
UUUU-----UUGUUGUU---GC--UGUUCUAAAUACGCCAAAAGUUGCUUUCGGGGCAUAAAU----AUAUGUCUUUAGUGUGGCAUGUCUGGUUGCGUUUUUGGAACU----
....-----........---..--.((((((((.((((.(..((.((((..(.(((((((...----.)))))))...)...))))...))..).)))).)))))))).---- ( -25.60)
>DroSim_CAF1 58253 95 + 1
UUUG-----UUGUUGUU---GC--UGUUCUAAAUACGCCAAAAGUUGCUUUCGGGGCAUAAAU----AUAUGUCUUUAGUGUGGCAUGUCUGGUUGCGUUUUUGGAACU----
....-----........---..--.((((((((.((((.(..((.((((..(.(((((((...----.)))))))...)...))))...))..).)))).)))))))).---- ( -25.60)
>DroEre_CAF1 74508 95 + 1
UUUG-----UUGUUGUU---GC--UGUUCUAAAUACGCCAAAAGUUGCUUUCGGGGCAUAAAU----AUAUGUCUUUAGUGUGGCAUGUCUGGUUGCGUUUUUGGAACU----
....-----........---..--.((((((((.((((.(..((.((((..(.(((((((...----.)))))))...)...))))...))..).)))).)))))))).---- ( -25.60)
>DroWil_CAF1 170426 109 + 1
UUUUUUUUUUCGUUCUGGCGGCUGUGUUCUAAAUACGCCAAAAGUUGCUUUCGGGGCAUAAAU----AUAUGUCUUUAGUGUGGCAUGUCUGGUUGCGUUUUUGGACCAAAAG
................((((((.((((.....)))))))....((..(.((..(((((((...----.)))))))..)).)..))..)))(((((.((....))))))).... ( -25.20)
>DroAna_CAF1 153476 96 + 1
UUU--------GUUGUU---GC--UGUUCUAAAUACGCCAAAAGUUGCUUUCGGGGCAUAAAUACAUAUAUGUCUUUAGUGUGGCAUGUCUGGUUGCGUUUUUGGAACU----
...--------......---..--.((((((((.((((.(..((.((((..(.(((((((........)))))))...)...))))...))..).)))).)))))))).---- ( -25.60)
>consensus
UUUG_____UUGUUGUU___GC__UGUUCUAAAUACGCCAAAAGUUGCUUUCGGGGCAUAAAU____AUAUGUCUUUAGUGUGGCAUGUCUGGUUGCGUUUUUGGAACU____
.........................((((((((.((((.(..((.((((...((((((((........))))))))......))))...))..).)))).))))))))..... (-24.95 = -24.98 +   0.03)

alignment

secondary structure

dotplot

Window 0

Location	21,466,567 – 21,466,662
Length	95
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	90.76
Mean single sequence MFE	-14.99
Consensus MFE	-13.84
Energy contribution	-13.87
Covariance contribution	0.03
Combinations/Pair	1.05
Mean z-score	-1.54
Structure conservation index	0.92
SVM decision value	1.18
SVM RNA-class probability	0.926526
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21466567 95 - 27905053
----AGUUCCAAAAACGCAACCAGACAUGCCACACUAAAGACAUAU----AUUUAUGCCCUGAAAGCAACUUUUGGCGUAUUUAGAACA--GC---AACAACAA-----CAAA
----.((((.......(((........)))...............(----(..((((((..(((((...)))))))))))..)))))).--..---........-----.... ( -13.40)
>DroSec_CAF1 73349 95 - 1
----AGUUCCAAAAACGCAACCAGACAUGCCACACUAAAGACAUAU----AUUUAUGCCCCGAAAGCAACUUUUGGCGUAUUUAGAACA--GC---AACAACAA-----AAAA
----.((((.(((.((((.......................((((.----...))))...((((((...)))))))))).))).)))).--..---........-----.... ( -14.90)
>DroSim_CAF1 58253 95 - 1
----AGUUCCAAAAACGCAACCAGACAUGCCACACUAAAGACAUAU----AUUUAUGCCCCGAAAGCAACUUUUGGCGUAUUUAGAACA--GC---AACAACAA-----CAAA
----.((((.(((.((((.......................((((.----...))))...((((((...)))))))))).))).)))).--..---........-----.... ( -14.90)
>DroEre_CAF1 74508 95 - 1
----AGUUCCAAAAACGCAACCAGACAUGCCACACUAAAGACAUAU----AUUUAUGCCCCGAAAGCAACUUUUGGCGUAUUUAGAACA--GC---AACAACAA-----CAAA
----.((((.(((.((((.......................((((.----...))))...((((((...)))))))))).))).)))).--..---........-----.... ( -14.90)
>DroWil_CAF1 170426 109 - 1
CUUUUGGUCCAAAAACGCAACCAGACAUGCCACACUAAAGACAUAU----AUUUAUGCCCCGAAAGCAACUUUUGGCGUAUUUAGAACACAGCCGCCAGAACGAAAAAAAAAA
(((((((.........(((........)))...........((((.----...))))..)))))))....((((((((...............))))))))............ ( -16.96)
>DroAna_CAF1 153476 96 - 1
----AGUUCCAAAAACGCAACCAGACAUGCCACACUAAAGACAUAUAUGUAUUUAUGCCCCGAAAGCAACUUUUGGCGUAUUUAGAACA--GC---AACAAC--------AAA
----.((((.(((.((((.......................((((........))))...((((((...)))))))))).))).)))).--..---......--------... ( -14.90)
>consensus
____AGUUCCAAAAACGCAACCAGACAUGCCACACUAAAGACAUAU____AUUUAUGCCCCGAAAGCAACUUUUGGCGUAUUUAGAACA__GC___AACAACAA_____CAAA
.....((((.(((.((((.......................((((........))))...((((((...)))))))))).))).))))......................... (-13.84 = -13.87 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:59 2006