Locus 3018

Sequence ID 3L_DroMel_CAF1
Location 8,674,261 – 8,674,352
Length 91
Max. P 0.982360
window4707 window4708

overview

Window 7

Location 8,674,261 – 8,674,352
Length 91
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 79.59
Mean single sequence MFE -27.97
Consensus MFE -14.82
Energy contribution -15.60
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -3.25
Structure conservation index 0.53
SVM decision value 1.19
SVM RNA-class probability 0.928297
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8674261 91 + 23771897
AGUUUUUUGUUAUUUUCUUAUUUU-----------------------CGUACAAAUGUACUGUUUGCCUGUGCAAAAUCUAUCUUCAUACGUACAUACGUACAUAUGUGUGUAC
........................-----------------------.((((....))))..(((((....)))))..............((((((((((....)))))))))) ( -16.80)
>DroSec_CAF1 62356 110 + 1
AGUGUUUUGUUAUUUUCUUAUUUUCGCCCUGGGCAAACACACAUACUCGUACAAAUGUGCUGUUUGCCUGUGCAACAUCUAUGUACAUACGUAC----GAACGUAUGUGUGUAC
.........................((.(.((((((((((((((..........))))).)))))))))).)).........((((((((((((----....)))))))))))) ( -34.50)
>DroSim_CAF1 62752 110 + 1
AGUUUUUUGUUAUUUUCUUAUUUUCGCCCUGGGCAAACAUACAUACUCGUACAAAUGUGCUGUUUGCCUGUGCAACAUCUAUGUACAUACGUAC----GAACGUAUGUGUGUAC
.........................((.(.((((((((((((((..........))))).)))))))))).)).........((((((((((((----....)))))))))))) ( -32.60)
>consensus
AGUUUUUUGUUAUUUUCUUAUUUUCGCCCUGGGCAAACA_ACAUACUCGUACAAAUGUGCUGUUUGCCUGUGCAACAUCUAUGUACAUACGUAC____GAACGUAUGUGUGUAC
................................................((((....))))...((((....)))).......((((((((((((........)))))))))))) (-14.82 = -15.60 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 8,674,261 – 8,674,352
Length 91
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 79.59
Mean single sequence MFE -25.83
Consensus MFE -15.37
Energy contribution -16.40
Covariance contribution 1.03
Combinations/Pair 1.05
Mean z-score -2.99
Structure conservation index 0.59
SVM decision value 1.91
SVM RNA-class probability 0.982360
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8674261 91 - 23771897
GUACACACAUAUGUACGUAUGUACGUAUGAAGAUAGAUUUUGCACAGGCAAACAGUACAUUUGUACG-----------------------AAAAUAAGAAAAUAACAAAAAACU
(((((..(((((((((....))))))))).........(((((....))))).........))))).-----------------------........................ ( -18.50)
>DroSec_CAF1 62356 110 - 1
GUACACACAUACGUUC----GUACGUAUGUACAUAGAUGUUGCACAGGCAAACAGCACAUUUGUACGAGUAUGUGUGUUUGCCCAGGGCGAAAAUAAGAAAAUAACAAAACACU
..((((((((((..((----(((((.((((.......((((((....)).))))..)))).)))))))))))))))))(((((...)))))....................... ( -31.30)
>DroSim_CAF1 62752 110 - 1
GUACACACAUACGUUC----GUACGUAUGUACAUAGAUGUUGCACAGGCAAACAGCACAUUUGUACGAGUAUGUAUGUUUGCCCAGGGCGAAAAUAAGAAAAUAACAAAAAACU
......((((((((..----..)))))))).........((((...(((((((((((.((((....)))).))).))))))))....))))....................... ( -27.70)
>consensus
GUACACACAUACGUUC____GUACGUAUGUACAUAGAUGUUGCACAGGCAAACAGCACAUUUGUACGAGUAUGU_UGUUUGCCCAGGGCGAAAAUAAGAAAAUAACAAAAAACU
(((((.((((((((........)))))))).........((((....))))..........)))))...........(((((.....)))))...................... (-15.37 = -16.40 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:30 2006