Locus 5538

Sequence ID 3L_DroMel_CAF1
Location 15,205,977 – 15,206,077
Length 100
Max. P 0.500000
window8751

overview

Window 1

Location 15,205,977 – 15,206,077
Length 100
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 80.05
Mean single sequence MFE -21.70
Consensus MFE -14.07
Energy contribution -14.35
Covariance contribution 0.28
Combinations/Pair 1.04
Mean z-score -1.29
Structure conservation index 0.65
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15205977 100 + 23771897
GCUAUUUUCAGUUUCCUGGCUCGCAGCUAGAUUCUGAAAAUUGAUGUUGCAUGCAACACAGCAACAGCAACGAACGAAUGAGAACUACACGGGGAAAAUU
(((((((((((..((.((((.....))))))..))))))))....(((((.((.....))))))))))................................ ( -22.80)
>DroVir_CAF1 84820 78 + 1
GCUAUUUUCAGUUUCCUGGCUCGUAGCAAGAUUCAGAAAAUUGAUGUUGCAUGCAACACACCAACAGCAAG-AGCAACU---------------------
(((....(((((((.(((..((.......))..))).)))))))(((((....))))).............-)))....--------------------- ( -17.90)
>DroPse_CAF1 84043 89 + 1
GCUAUUUUCAGUUUCCUGGCUCGUAGCUAGAUUCAGAAAAUUGAUGUUGCAUGCAGCACAAGCACACCAGCAAA-AACU-AGAACCACAAC---------
(((....(((((((.(((..((.......))..))).)))))))(((((....)))))..)))...........-....-...........--------- ( -17.80)
>DroEre_CAF1 95898 100 + 1
GCUAUUUUCAGUUUCCUGGCUCGCAGCUAGAUUCUGAAAAUUGAUGUUGCAUGCAACACAGCAACAGCAACGAGCAACUGGGAACUACACGGGGAAAACU
(((((((((((..((.((((.....))))))..))))))))...((((((.(((......)))...)))))))))..((((......).)))........ ( -27.30)
>DroYak_CAF1 99789 100 + 1
GCUAUUUUCAGUUUCCUGGCUCGCAGCUAGAUUCUGAAAAUUGAUGUUGCAUGCAACACAGCAACAGCAACGAGAAACUGGGAACUACACGGGAAAAACU
....((..((((((((((((.....)))))..........(((.((((((.((.....)))))))).)))...)))))))..))................ ( -26.60)
>DroPer_CAF1 84481 89 + 1
GCUAUUUUCAGUUUCCUGGCUCGUAGCUAGAUUCAGAAAAUUGAUGUUGCAUGCAGCACAAGCACACCAGCAAA-AACU-AGAACCACAAC---------
(((....(((((((.(((..((.......))..))).)))))))(((((....)))))..)))...........-....-...........--------- ( -17.80)
>consensus
GCUAUUUUCAGUUUCCUGGCUCGCAGCUAGAUUCAGAAAAUUGAUGUUGCAUGCAACACAGCAACAGCAACGAACAACU_AGAACUACACG_________
(((((((((.(..((.((((.....))))))..).))))))((.(((((....))))))).....)))................................ (-14.07 = -14.35 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:43 2006