Locus 1884

Sequence ID 3L_DroMel_CAF1
Location 5,270,010 – 5,270,112
Length 102
Max. P 0.812440
window2937 window2938

overview

Window 7

Location 5,270,010 – 5,270,112
Length 102
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 91.18
Mean single sequence MFE -20.78
Consensus MFE -15.87
Energy contribution -16.18
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -2.20
Structure conservation index 0.76
SVM decision value 0.65
SVM RNA-class probability 0.812440
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5270010 102 + 23771897
UUCCAAAUUCAAAAGCACAAUUUGCAAGUCCCUGGCCAGGAUAUAAA--------AACAAGUAGAAUGGAUGAAUGAAAAUCUGCCGAAAGAAAGGACUGGCAAAAGGCA
..............((....(((((.(((((....(((...(((...--------.....)))...)))...........(((......)))..))))).)))))..)). ( -19.50)
>DroSec_CAF1 24773 107 + 1
UUCAAAAUUCAAAAGCACAAUUUGCAAGUCCCUCGCCAGGAUAUAAAAA---AAAAACAAGUAGAAUGGAUGAAUGAAAAACUGCCGAAAGAAAGGACUGGCAAAAGGCA
..............((....(((((.(((((.((((((...(((.....---........)))...))).)))............(....)...))))).)))))..)). ( -19.82)
>DroSim_CAF1 24454 110 + 1
UUCAAAAUUCAAAAGCACAAUUUGCAAGUCCCUCGCCAGGAUAUAAAAAAAAAAAAACAAGUAGAAUGGAUGAAUGAAAAUCUGCCGAAAGAAAGGACUGGCAAAAGGCA
..............((....(((((.(((((.((((((...(((................)))...))).))).......(((......)))..))))).)))))..)). ( -19.69)
>DroEre_CAF1 24999 101 + 1
UUCAAAAUUCAAAAGCACAAUUCGCCAGUCCCUGGCCAGGAUAUAAA--------AACAAGCAGAAUGGCUGAAUGGAAAUCUGCCGAAAGAAAGGACUGGCAAAAGG-A
.......................((((((((................--------.....(((((....((....))...)))))(....)...))))))))......-. ( -24.10)
>consensus
UUCAAAAUUCAAAAGCACAAUUUGCAAGUCCCUCGCCAGGAUAUAAA________AACAAGUAGAAUGGAUGAAUGAAAAUCUGCCGAAAGAAAGGACUGGCAAAAGGCA
..............(((.....))).....(((.(((((.....................(((((...............)))))(....)......)))))...))).. (-15.87 = -16.18 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,270,010 – 5,270,112
Length 102
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 91.18
Mean single sequence MFE -21.32
Consensus MFE -15.74
Energy contribution -16.30
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -1.78
Structure conservation index 0.74
SVM decision value 0.07
SVM RNA-class probability 0.570853
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5270010 102 - 23771897
UGCCUUUUGCCAGUCCUUUCUUUCGGCAGAUUUUCAUUCAUCCAUUCUACUUGUU--------UUUAUAUCCUGGCCAGGGACUUGCAAAUUGUGCUUUUGAAUUUGGAA
.(((.(((((.(((((((......(((.(((.......((...........))..--------.....)))...)))))))))).)))))..).)).............. ( -19.14)
>DroSec_CAF1 24773 107 - 1
UGCCUUUUGCCAGUCCUUUCUUUCGGCAGUUUUUCAUUCAUCCAUUCUACUUGUUUUU---UUUUUAUAUCCUGGCGAGGGACUUGCAAAUUGUGCUUUUGAAUUUUGAA
.(((.(((((.((((((.....(((.(((..(..........................---.......)..))).))))))))).)))))..).)).............. ( -19.71)
>DroSim_CAF1 24454 110 - 1
UGCCUUUUGCCAGUCCUUUCUUUCGGCAGAUUUUCAUUCAUCCAUUCUACUUGUUUUUUUUUUUUUAUAUCCUGGCGAGGGACUUGCAAAUUGUGCUUUUGAAUUUUGAA
.(((.(((((.((((((.....(((.(((..........................................))).))))))))).)))))..).)).............. ( -19.95)
>DroEre_CAF1 24999 101 - 1
U-CCUUUUGCCAGUCCUUUCUUUCGGCAGAUUUCCAUUCAGCCAUUCUGCUUGUU--------UUUAUAUCCUGGCCAGGGACUGGCGAAUUGUGCUUUUGAAUUUUGAA
.-...(((((((((((((......(((.((.......)).))).....(((.(..--------(....)..).))).))))))))))))).................... ( -26.50)
>consensus
UGCCUUUUGCCAGUCCUUUCUUUCGGCAGAUUUUCAUUCAUCCAUUCUACUUGUU________UUUAUAUCCUGGCCAGGGACUUGCAAAUUGUGCUUUUGAAUUUUGAA
.((..(((((.((((((.....(((.(((..........................................))).))))))))).)))))..))................ (-15.74 = -16.30 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:06 2006