Locus 10071

Sequence ID 3R_DroMel_CAF1
Location 26,978,632 – 26,978,750
Length 118
Max. P 1.000000
window16038 window16039

overview

Window 8

Location 26,978,632 – 26,978,750
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 62.29
Mean single sequence MFE -25.57
Consensus MFE -11.53
Energy contribution -11.65
Covariance contribution 0.12
Combinations/Pair 1.16
Mean z-score -2.85
Structure conservation index 0.45
SVM decision value 3.27
SVM RNA-class probability 0.998885
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26978632 118 + 27905053
AAAAAUUACUUUAACAGGCGUCUAAAAGUAUG--CAACUGUAAAAAUAAUACUGCACACUUUUAGACACCUUAAUCAAAUAUGUUAGCAUCUUAGUGAUUUCUGUGGAAUCCUCAUAACU
..((((((((.....(((.((((((((((.((--((...(((.......))))))).)))))))))).))).........(((....)))...)))))))).(((((.....)))))... ( -26.30)
>DroSec_CAF1 26433 97 + 1
AAAAAGUACUUUAACAGAUGUCUGAAAGUAUG----------------------CACACUUUUAGAC-ACUUAAACGAAGAUGUUAGCAUCUAAGUGAUUUCUGCAGAGUCCUUAUAUAU
...(((.(((((..(((((((((((((((...----------------------...))))))))))-).....((..(((((....)))))..))....)))).))))).)))...... ( -26.20)
>DroYak_CAF1 26713 112 + 1
AGAGAGCACUCUUAAAGGCGUCUAAAAGUAUGAGCUCCACUAAAUGUAAUGUGGCACACUUUUACACACCUUUUCAAGAGAUGUUA--------GUUAUUUAUGUGGUAUCCCUUAAUCU
....((((((((((((((.((.(((((((.((....((((..........)))))).))))))).)).)))))..))))).)))).--------.......................... ( -24.20)
>consensus
AAAAAGUACUUUAACAGGCGUCUAAAAGUAUG__C__C__UAAA__UAAU___GCACACUUUUAGACACCUUAAACAAAGAUGUUAGCAUCU_AGUGAUUUCUGUGGAAUCCUUAUAUCU
........((((...(((.((((((((((.((......................)).)))))))))).))).....))))........................................ (-11.53 = -11.65 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 26,978,632 – 26,978,750
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 62.29
Mean single sequence MFE -30.56
Consensus MFE -18.92
Energy contribution -19.82
Covariance contribution 0.89
Combinations/Pair 1.17
Mean z-score -3.72
Structure conservation index 0.62
SVM decision value 7.41
SVM RNA-class probability 1.000000
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26978632 118 - 27905053
AGUUAUGAGGAUUCCACAGAAAUCACUAAGAUGCUAACAUAUUUGAUUAAGGUGUCUAAAAGUGUGCAGUAUUAUUUUUACAGUUG--CAUACUUUUAGACGCCUGUUAAAGUAAUUUUU
(((....((((((.......)))).)).....)))....(((((.....((((((((((((((((((((((.......)))...))--)))))))))))))))))....)))))...... ( -34.60)
>DroSec_CAF1 26433 97 - 1
AUAUAUAAGGACUCUGCAGAAAUCACUUAGAUGCUAACAUCUUCGUUUAAGU-GUCUAAAAGUGUG----------------------CAUACUUUCAGACAUCUGUUAAAGUACUUUUU
......(((((((..(((((....(((((((((..........)))))))))-((((.((((((..----------------------..)))))).)))).)))))...))).)))).. ( -22.60)
>DroYak_CAF1 26713 112 - 1
AGAUUAAGGGAUACCACAUAAAUAAC--------UAACAUCUCUUGAAAAGGUGUGUAAAAGUGUGCCACAUUACAUUUAGUGGAGCUCAUACUUUUAGACGCCUUUAAGAGUGCUCUCU
...(((((((((..............--------....)))))))))((((((((.((((((((((((((..........))))....)))))))))).)))))))).((((....)))) ( -34.47)
>consensus
AGAUAUAAGGAUUCCACAGAAAUCACU_AGAUGCUAACAUCUUUGAUUAAGGUGUCUAAAAGUGUGC___AUUA__UUUA__G__G__CAUACUUUUAGACGCCUGUUAAAGUACUUUUU
........................................(((((((..(((((((((((((((((......................))))))))))))))))))))))))........ (-18.92 = -19.82 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:48:15 2006