Locus 291

Sequence ID 3L_DroMel_CAF1
Location 830,682 – 830,798
Length 116
Max. P 0.770736
window435 window436

overview

Window 5

Location 830,682 – 830,798
Length 116
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 75.58
Mean single sequence MFE -42.35
Consensus MFE -19.97
Energy contribution -21.58
Covariance contribution 1.61
Combinations/Pair 1.27
Mean z-score -2.00
Structure conservation index 0.47
SVM decision value 0.53
SVM RNA-class probability 0.770736
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 830682 116 + 23771897
AGGACUUCGAGGAGCAGCAACAGGAGCUGCUCACUUGGAGGAGCAAGCAGGCGGAGCUGCAGAGGGAGACCAAGCAGCUGGAAGGACUGCUCCAUGUGGCCAAUGAGCAGGUUGGA
.(((((((((((((((((.......))))))).)))))))......((((.(..((((((...((....))..))))))....)..)))))))......(((((......))))). ( -48.60)
>DroVir_CAF1 6523 108 + 1
CGGAGUUUGAGCAACAGCGUCAGACACUGGCCACUUGGCAGGCUCAGCAGGCGGAACUGCAGCGGGAGAACAAACAGCUCGAGGGUCUGCUGCAGGUGGCCAAUGCGC--------
....((((((((....)).))))))..((((((((((((((((((.((((......))))..((((...........)))).))))))))..))))))))))......-------- ( -47.90)
>DroGri_CAF1 4294 108 + 1
AGGAGUUUGAGAGACAGCGCCAGGAGCUGACCACUUGGCGCGGUCAGCAGUCGGAGCUGCAGCGGAAGAACAAGCAGUUGGAGGGCCUGUUGCAGGUGGCCAAUGGAC--------
....(((((...(((.((((((((.........)))))))).))).(((((....)))))..(....)..))))).(((((...(((((...)))))..)))))....-------- ( -40.80)
>DroEre_CAF1 6024 116 + 1
GGGACUUCGAGAAGCAGCAGCAGGAGCUGCUCACUUGGAAGACCAAGCAGGCGGAGCUGCAGAGGGAGAGCAAGCAGCUGGAAGGUCUGCUCCAAGUAGCCAAUGAACAGGUUGGU
.............(.((((((....)))))))((((((((((((..((((......))))........(((.....)))....)))))..))))))).((((((......)))))) ( -38.90)
>DroYak_CAF1 5485 116 + 1
GCGACUUCGAGAAGCAGCAGCAGGAGCUGCUCACCUGGAAGACCAAGCAGGCGGAGCUGCAGCGGGAGACCAGGCAGCUGGAAGGUCUGCUCCAAGUGGCCAAUGAACAGGUGGGA
....((((.((..(.((((((....)))))))..)).)))).((.(((((((..((((((...((....))..)))))).....))))))).......(((........))))).. ( -45.30)
>DroAna_CAF1 5607 116 + 1
AGGACUUUGAGAGGCAGCGUCAAGAGCUGUCCAAUUGGAAGAGCAAACAGGCGGAACUUCAACGGGAAACCAAGCAACUGGAAGGACUACUUCAGGUGGCCAAUACACAGGUAAGU
((..((((.((..((..((((....(((.(((....)))..))).....))))..........((....))..))..)).))))..))(((((..(((.......)))..).)))) ( -32.60)
>consensus
AGGACUUCGAGAAGCAGCAGCAGGAGCUGCCCACUUGGAAGACCAAGCAGGCGGAGCUGCAGCGGGAGACCAAGCAGCUGGAAGGUCUGCUCCAGGUGGCCAAUGAACAGGU_GG_
.((..........(((((.......)))))((((((((........((((......))))............(((((((....)).)))))))))))))))............... (-19.97 = -21.58 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 830,682 – 830,798
Length 116
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 75.58
Mean single sequence MFE -35.64
Consensus MFE -19.10
Energy contribution -18.30
Covariance contribution -0.80
Combinations/Pair 1.52
Mean z-score -1.63
Structure conservation index 0.54
SVM decision value 0.10
SVM RNA-class probability 0.583232
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 830682 116 - 23771897
UCCAACCUGCUCAUUGGCCACAUGGAGCAGUCCUUCCAGCUGCUUGGUCUCCCUCUGCAGCUCCGCCUGCUUGCUCCUCCAAGUGAGCAGCUCCUGUUGCUGCUCCUCGAAGUCCU
......((((((..((....))..))))))..((((.((((((..((....))...))))))......(((((......)))))(((((((.......)))))))...)))).... ( -39.00)
>DroVir_CAF1 6523 108 - 1
--------GCGCAUUGGCCACCUGCAGCAGACCCUCGAGCUGUUUGUUCUCCCGCUGCAGUUCCGCCUGCUGAGCCUGCCAAGUGGCCAGUGUCUGACGCUGUUGCUCAAACUCCG
--------..(((((((((((.((..((((......((((.....))))....(((.((((.......))))))))))))).))))))))))).(((.((....)))))....... ( -38.70)
>DroGri_CAF1 4294 108 - 1
--------GUCCAUUGGCCACCUGCAACAGGCCCUCCAACUGCUUGUUCUUCCGCUGCAGCUCCGACUGCUGACCGCGCCAAGUGGUCAGCUCCUGGCGCUGUCUCUCAAACUCCU
--------.......(((.....(.(((((((.........))))))))....)))(((((.(((...(((((((((.....)))))))))...))).)))))............. ( -36.60)
>DroEre_CAF1 6024 116 - 1
ACCAACCUGUUCAUUGGCUACUUGGAGCAGACCUUCCAGCUGCUUGCUCUCCCUCUGCAGCUCCGCCUGCUUGGUCUUCCAAGUGAGCAGCUCCUGCUGCUGCUUCUCGAAGUCCC
...............((((.(..(((((((.......(((((((..(.........((((......))))((((....)))))..))))))).......)))))))..).)))).. ( -37.94)
>DroYak_CAF1 5485 116 - 1
UCCCACCUGUUCAUUGGCCACUUGGAGCAGACCUUCCAGCUGCCUGGUCUCCCGCUGCAGCUCCGCCUGCUUGGUCUUCCAGGUGAGCAGCUCCUGCUGCUGCUUCUCGAAGUCGC
...((((((......(((((.....(((((.(.....((((((.(((....)))..))))))..).))))))))))...))))))((((((....))))))((((....))))... ( -40.50)
>DroAna_CAF1 5607 116 - 1
ACUUACCUGUGUAUUGGCCACCUGAAGUAGUCCUUCCAGUUGCUUGGUUUCCCGUUGAAGUUCCGCCUGUUUGCUCUUCCAAUUGGACAGCUCUUGACGCUGCCUCUCAAAGUCCU
......((.((....(((..(.(.(((.(((...((((((((...((....))...((((....((......)).))))))))))))..)))))).).)..)))...)).)).... ( -21.10)
>consensus
_CC_ACCUGUUCAUUGGCCACCUGGAGCAGACCUUCCAGCUGCUUGGUCUCCCGCUGCAGCUCCGCCUGCUUGCUCUUCCAAGUGAGCAGCUCCUGACGCUGCUUCUCAAAGUCCU
........(((((((((.......((((((.......((((((..(......)...))))))....))))))......)))).)))))(((.......)))............... (-19.10 = -18.30 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:28 2006