Locus 1977

Sequence ID 3L_DroMel_CAF1
Location 5,451,928 – 5,452,043
Length 115
Max. P 0.588873
window3099

overview

Window 9

Location 5,451,928 – 5,452,043
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.45
Mean single sequence MFE -30.86
Consensus MFE -19.90
Energy contribution -20.66
Covariance contribution 0.76
Combinations/Pair 1.04
Mean z-score -1.98
Structure conservation index 0.64
SVM decision value 0.11
SVM RNA-class probability 0.588873
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5451928 115 - 23771897
UCCUGGGGCCUAGAUUCAUCACCGAGUCUGGCGGCAUUCGUGUGUUUUUCCAGCUUCCAGAGAUUUCACGUAAGCCCCUGUGAAACUCCUAAAAAA-CGUCCAAAACG----UUUUUUAA
..((((((((.((((((......)))))))))(((((....)))))..)))))......(((.(((((((........)))))))))).(((((((-(((.....)))----))))))). ( -35.00)
>DroSec_CAF1 13430 114 - 1
UCCUGGGGCCUAGAUUCAUCACCGAGUCUGCCCGAAUUCGUGUGUUUUUCCAGCUUCCAGAGAUUUCACGUAAGCCCCCGUGAAACUCCGAAAAAA-AGUACAAAAC-----UUUUUUAA
..(((((((..((((((......))))))))))((((......))))...)))......(((.(((((((........))))))))))...(((((-(((.....))-----)))))).. ( -28.60)
>DroSim_CAF1 13552 114 - 1
UCCUGGGGCCUAGAUUCAUCACCGAGUCUGUCCGCAUUCGUGUGUUUUUCCAGCUUCCAGAGAUUUCACGUAAGCCCCCGUGAAACGUCUAAAAAA-UGUCCAAAAA-----UUUUUUAA
(((((((((.(((((((......)))))))..((((....))))........)).))))).))(((((((........)))))))....(((((((-(........)-----))))))). ( -26.90)
>DroEre_CAF1 13093 120 - 1
UCCUGGGGCCUAGAUUCAUCACCGAGUCUGGCAGCAUCCGUGUGUUUUUCCAGCCCCCAGAGAUUUCACGUAAGCCUCUGCGAAGCUGCUAAAAAAACAACCAAAACGGUUUUUUUUUUA
((((((((((.((((((......)))))))))(((((....))))).........))))).)).....((((......)))).......((((((((.((((.....)))).)))))))) ( -31.90)
>DroYak_CAF1 247 116 - 1
UCCUGGGGCCUAGAUUCAUCACCGAGUCUGGCAGCAUUCGUGUGUUAUUCCAGCUUUCACAGAUUUCAGGCAAGCCUCUGUGAAGCCCCUAAAAAA--AAGCAUAACUA--UUUAUUUCA
....(((((((((((((......)))))))).(((((....))))).........((((((((.....((....))))))))))))))).......--...........--......... ( -31.90)
>consensus
UCCUGGGGCCUAGAUUCAUCACCGAGUCUGGCAGCAUUCGUGUGUUUUUCCAGCUUCCAGAGAUUUCACGUAAGCCCCUGUGAAACUCCUAAAAAA_CGUCCAAAAC_____UUUUUUAA
(((.(((((((((((((......)))))))).......((((.((((((.........))))))..))))...))))).).))..................................... (-19.90 = -20.66 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:38 2006