Locus 3716

Sequence ID 3R_DroMel_CAF1
Location 10,090,863 – 10,090,972
Length 109
Max. P 0.500000
window5953

overview

Window 3

Location 10,090,863 – 10,090,972
Length 109
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 79.70
Mean single sequence MFE -27.82
Consensus MFE -19.18
Energy contribution -18.93
Covariance contribution -0.25
Combinations/Pair 1.21
Mean z-score -1.11
Structure conservation index 0.69
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10090863 109 + 27905053
AAUAGGACACUU----CACUUUGUACUCACCUCACAGCAGUGAUUAAUGAAACGCGCCGCAUUGCCGCGCAUCGUGGCAUCAACUACAAGGUUAUCGUCAAUUUUGAACAUAU
.....(((....----.((((((((.(((..((((....))))....))).....(((((..(((...)))..)))))......))))))))....))).............. ( -23.80)
>DroVir_CAF1 4076 106 + 1
AU------AUCCCAGUCUC-UUUAACUUACCUCACAGGAGUGAUUGAUAAAGCGCGCCGCAUUGCCACGCAUUGUGGCAUCCACUACCAGAUUGUCGUCGAUCUUGAACAUGU
..------....(((((.(-(((.............)))).))))).........((((((.(((...))).))))))........(.((((((....)))))).)....... ( -23.82)
>DroPse_CAF1 221 107 + 1
AAUC-AAUGCUU----GAA-AAGUACUCACCUCACAGGAGUGAUUGAUGAAACGGGCCGCAUUGCCCCGCAUGGUGGCAUCCACCACCAGGUUGUCAUCGAUCUUGAACAUGU
..((-((.....----...-....((((.(......)))))((((((((((((((((......))))....((((((......)))))).))).)))))))))))))...... ( -32.30)
>DroGri_CAF1 225 106 + 1
AA------ACUUAAAUGUC-GUUUACUCACCUCACAGGAGUGAUUGAUAAAACGAGCCGCAUUGCCACGCAUCGUGGCAUCCACCACGAGAUUGUCGUCGAUCUUGAACAUGU
..------.........((-((((..(((..((((....)))).)))..))))))(((((..(((...)))..)))))........((((((((....))))))))....... ( -29.10)
>DroAna_CAF1 4959 98 + 1
-A--------------AAAUAAGUACUCACCUCACAGGAGUGAUUGAUGAAACGGGCCGCAUUGCCGCGCAUGGUGGCAUCCACAACCAGGUUGUCGUCAAUCUUGAACAUGU
-.--------------........((((.(......)))))((((((((((((.((......((((((.....)))))).......))..))).))))))))).......... ( -25.62)
>DroPer_CAF1 221 107 + 1
AAUC-AAUGCUU----GAA-AAGUACUCACCUCACAGGAGUGAUUGAUGAAACGGGCCGCAUUGCCCCGCAUGGUGGCAUCCACCACCAGGUUGUCAUCGAUCUUGAACAUGU
..((-((.....----...-....((((.(......)))))((((((((((((((((......))))....((((((......)))))).))).)))))))))))))...... ( -32.30)
>consensus
AA______ACUU____GAA_AAGUACUCACCUCACAGGAGUGAUUGAUGAAACGGGCCGCAUUGCCACGCAUGGUGGCAUCCACCACCAGGUUGUCGUCGAUCUUGAACAUGU
........................((((.........))))(((((((((.....(((((..(((...)))..)))))(((........)))..))))))))).......... (-19.18 = -18.93 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:13 2006