Locus 1107

Sequence ID 3R_DroMel_CAF1
Location 3,353,942 – 3,354,053
Length 111
Max. P 0.796933
window1812

overview

Window 2

Location 3,353,942 – 3,354,053
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 71.63
Mean single sequence MFE -23.88
Consensus MFE -15.12
Energy contribution -15.80
Covariance contribution 0.68
Combinations/Pair 1.08
Mean z-score -1.51
Structure conservation index 0.63
SVM decision value 0.60
SVM RNA-class probability 0.796933
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3353942 111 - 27905053
AAGUAUUUC----UUCACAACCCAAAAAUUUGGCUAAGCAUUUAUUAACGGGGCAGGCCAUCGUAUACAAACU-UGGCCUGCUCAAUUUAAAAUUCUGUAAGAGAAUUAUUG----AGAU
.((((.(((----((.(((..((((....))))...........((((..((((((((((..((......)).-))))))))))...)))).....)))..))))).)))).----.... ( -27.20)
>DroSec_CAF1 47393 86 - 1
AAGUU-----------------------------UAUUUAUUUAUUAACGGGGAAGGCCAUCGUAUCCAAACU-UGGCCUGCUCAAUUUAAGAUUCUGUAAGAGAAUUAUUG----AGGU
.....-----------------------------....................((((((..((......)).-)))))).((((((....((((((.....))))))))))----)).. ( -17.90)
>DroSim_CAF1 41641 111 - 1
AAGUAAUUC----UUCGCAACACCCAAAUUUAACUAAGCAUUUAUUAACGGGGUAGGCCAUCGUAUCCAAACU-UGGCCUGCUCAAUUUAAGAUUCUGUAAGAGAAUUAUUG----AGGU
.((((((((----((.(((...(((.....(((........))).....)))((((((((..((......)).-))))))))..............)))..)))))))))).----.... ( -25.50)
>DroEre_CAF1 40672 116 - 1
GAGUAGUUC----UUCGCAACGCCCAAAUUUGGCCAAACAUUUAUUAACUCGGCAGGCCAUCGUAUCCAAACUUUGGCCUGCUCAAUUUAUGAUUCAGUAAUAAAACUGUUAAGUAAGGG
((((.(((.----.....)))(((.......))).............))))(((((((((..((......))..)))))))))...(((((....((((......))))....))))).. ( -29.80)
>DroYak_CAF1 61966 108 - 1
AAGUAUUUUAUUAUUAGCA----CCA---UAGGCUAACCAUUUAUUAAG-AGGCAUGCCAUCGUAUCCUAACUUUGGCCUGCUCAAUUUAAGGUUCCAUAACAAACUUGUGA----AAGG
.............(((((.----...---...)))))((.(((((...(-((.((.((((..((......))..)))).)))))......(((((........)))))))))----).)) ( -19.00)
>consensus
AAGUAUUUC____UUCGCAAC_CCCAAAUUUGGCUAAGCAUUUAUUAACGGGGCAGGCCAUCGUAUCCAAACU_UGGCCUGCUCAAUUUAAGAUUCUGUAAGAGAAUUAUUG____AGGU
..................................................((((((((((..((......))..)))))))))).................................... (-15.12 = -15.80 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:04 2006