Locus 672

Sequence ID 2R_DroMel_CAF1
Location 3,321,061 – 3,321,177
Length 116
Max. P 0.614269
window1187

overview

Window 7

Location 3,321,061 – 3,321,177
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.08
Mean single sequence MFE -30.73
Consensus MFE -20.15
Energy contribution -19.73
Covariance contribution -0.41
Combinations/Pair 1.29
Mean z-score -1.35
Structure conservation index 0.66
SVM decision value 0.16
SVM RNA-class probability 0.614269
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3321061 116 + 20766785
AUUGUUGUUCUCAUU----UUUUAGUUAAUGACUGGCAUGUCCAAGCUCAUGAAGGAGUGCUGGCACCAAAACCCCGACGUGCGCUUGCCAGCGCUGCGCAUCAAAAAGACUAUACAUAA
.(((.(((.((((((----........)))))((..((((........))))..))((((((((((.....((......)).....))))))))))).))).)))............... ( -27.20)
>DroVir_CAF1 2007 114 + 1
AUUAUAUACCU--GU----UUGUAGCUACUGGCCGGCAUGUCCAAGCUAAUGAAGGAGUGCUGGCAUCAGAAUCCGAAUGUGCGUUUGCCAGCGUUGCGCAUUAAAAAGACUAUACAUAA
..........(--((----.(((((((.(((((((((((.(((...(....)..)))))))))))..)))......((((((((..((....)).))))))))....)).))))).))). ( -31.20)
>DroGri_CAF1 2232 115 + 1
CCUUUCUUUCUU-UU----AAACAGCUCCUUGCCGGCAUGUCUAAGCUAAUGAGGGAGUGCUGGCAUCAGAAUCCGAACGUUCGUUUGCCAGCGCUGCGCAUUAAAAAGACUAUACAUAA
........((((-((----.((..((((((((..(((........)))..))))))((((((((((...((((......))))...))))))))))))...)).)))))).......... ( -33.40)
>DroMoj_CAF1 1982 115 + 1
AUUAUGUUUCUC-AU----CUACAGCUUCUGGCUGGCAUGUCCAAGCUAAUGAAGGAAUGCUGGCAUCAGAAUCCGAAUGUUCGCCUGCCAGCGUUGCGCAUUAAAAAGACUAUACAUAA
.((((((.....-..----...((((.....))))....(((.....(((((..(.((((((((((...((((......))))...)))))))))).).)))))....)))...)))))) ( -32.90)
>DroAna_CAF1 2829 115 + 1
AU--CU---CUCCUUUCUUGAUCAGCUACUGGCUGGGAUGUCUAAACUAAUGAAAGAGUGCUGGCACCAGAACCCCAACGUGCGCUUGCCAGCGCUGCGCAUCAAAAAGACCAUACAUAA
..--..---......((((..(((((.....)))))(((((.....((......))((((((((((...(.((......)).)...))))))))))..)))))...)))).......... ( -29.30)
>DroPer_CAF1 1936 113 + 1
AUUGGU---UUUAUU----UUACAGCUGCUGGCCGGCAUGUCCAAGCUAAUGAAGGAGUGUUGGCACCAGAACCCAAAUGUUCGUCUGCCAGCCCUUCGCAUCAAAAAGACUAUACAUAA
..((((---(((...----....((((...(((......)))..))))...(((((...(((((((...((((......))))...))))))))))))........)))))))....... ( -30.40)
>consensus
AUUAUUUUUCUC_UU____UUACAGCUACUGGCCGGCAUGUCCAAGCUAAUGAAGGAGUGCUGGCACCAGAACCCGAACGUGCGCUUGCCAGCGCUGCGCAUCAAAAAGACUAUACAUAA
.......................((((...(((......)))..))))..(((.(.((((((((((...(.((......)).)...)))))))))).)...)))................ (-20.15 = -19.73 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:15 2006