Locus 7532

Sequence ID X_DroMel_CAF1
Location 18,803,388 – 18,803,492
Length 104
Max. P 0.999522
window12361 window12362

overview

Window 1

Location 18,803,388 – 18,803,492
Length 104
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 76.43
Mean single sequence MFE -14.97
Consensus MFE -10.86
Energy contribution -10.68
Covariance contribution -0.19
Combinations/Pair 1.07
Mean z-score -1.76
Structure conservation index 0.73
SVM decision value 0.95
SVM RNA-class probability 0.888706
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18803388 104 + 22224390
CC-----UGUUGAUU----UUUUUUUUGUUUUUGUUUUAAUUUUCCCACUUUUGUAUAUACGAGUAUGUGUGUAUAUUUUUCUCCAUUCUCUGACGGAGUUUGGAUAAAAUAU
..-----........----.............(((((((.............(((((((((......)))))))))......((((..(((.....)))..))))))))))). ( -18.10)
>DroSec_CAF1 40956 84 + 1
CC-----UGUUGAUU----UU----------UUGUUUUAAUUUUCCCACUUUUGUG----------UGUAUGUAUAUUUUUCUCCAUUCUCUGACGGAGUUUGGAUAAAAUAU
..-----........----..----------.(((((((.......(((......)----------))..............((((..(((.....)))..))))))))))). ( -13.20)
>DroSim_CAF1 24245 84 + 1
CC-----UGUUGAUU----UU----------UUGUUUUAAUUUUCCCACUUUUGUG----------UGUAUGUAUAUUUUUCUCCAUUCUCUGACGGAGUUUGGAUAAAAUAU
..-----........----..----------.(((((((.......(((......)----------))..............((((..(((.....)))..))))))))))). ( -13.20)
>DroEre_CAF1 39238 94 + 1
CCUCUGCUGCUGCUGCAGAUUUUUUUUUGUU---UUUUAAUUUUCCCACUUUUGUA----------------UAUAUUUUUCUCCAUUUUCUGACGGAGUUUGGAUAAAAUAU
..(((((.......)))))............---......................----------------.(((((((..((((..(((.....)))..)))).))))))) ( -15.40)
>consensus
CC_____UGUUGAUU____UU__________UUGUUUUAAUUUUCCCACUUUUGUA__________UGUAUGUAUAUUUUUCUCCAUUCUCUGACGGAGUUUGGAUAAAAUAU
.........................................................................(((((((..((((..(((.....)))..)))).))))))) (-10.86 = -10.68 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,803,388 – 18,803,492
Length 104
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 76.43
Mean single sequence MFE -13.73
Consensus MFE -11.18
Energy contribution -10.92
Covariance contribution -0.25
Combinations/Pair 1.08
Mean z-score -2.76
Structure conservation index 0.81
SVM decision value 3.68
SVM RNA-class probability 0.999522
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18803388 104 - 22224390
AUAUUUUAUCCAAACUCCGUCAGAGAAUGGAGAAAAAUAUACACACAUACUCGUAUAUACAAAAGUGGGAAAAUUAAAACAAAAACAAAAAAAA----AAUCAACA-----GG
..(((((.((((..((((((......))))))....((((((..........)))))).......)))))))))....................----........-----.. ( -13.40)
>DroSec_CAF1 40956 84 - 1
AUAUUUUAUCCAAACUCCGUCAGAGAAUGGAGAAAAAUAUACAUACA----------CACAAAAGUGGGAAAAUUAAAACAA----------AA----AAUCAACA-----GG
........(((...((((((......)))))).............((----------(......))))))............----------..----........-----.. ( -12.60)
>DroSim_CAF1 24245 84 - 1
AUAUUUUAUCCAAACUCCGUCAGAGAAUGGAGAAAAAUAUACAUACA----------CACAAAAGUGGGAAAAUUAAAACAA----------AA----AAUCAACA-----GG
........(((...((((((......)))))).............((----------(......))))))............----------..----........-----.. ( -12.60)
>DroEre_CAF1 39238 94 - 1
AUAUUUUAUCCAAACUCCGUCAGAAAAUGGAGAAAAAUAUA----------------UACAAAAGUGGGAAAAUUAAAA---AACAAAAAAAAAUCUGCAGCAGCAGCAGAGG
........(((...((((((......)))))).........----------------(((....)))))).........---............(((((.......))))).. ( -16.30)
>consensus
AUAUUUUAUCCAAACUCCGUCAGAGAAUGGAGAAAAAUAUACAUACA__________CACAAAAGUGGGAAAAUUAAAACAA__________AA____AAUCAACA_____GG
........(((...((((((......)))))).........................(((....))))))........................................... (-11.18 = -10.92 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:19 2006