Locus 5067

Sequence ID X_DroMel_CAF1
Location 13,258,741 – 13,258,831
Length 90
Max. P 0.942732
window8235 window8236

overview

Window 5

Location 13,258,741 – 13,258,831
Length 90
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 81.38
Mean single sequence MFE -14.80
Consensus MFE -12.67
Energy contribution -12.57
Covariance contribution -0.11
Combinations/Pair 1.14
Mean z-score -1.70
Structure conservation index 0.86
SVM decision value 0.95
SVM RNA-class probability 0.887523
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13258741 90 + 22224390
AAUUUGCAGGACACUGAAUGUUGUUACCUUCAGCAUUCGUCUGC-------CAUGUUAC----UUUUUAAGUUUUCAUCGGUUUAUUUUUAUUUUUUUUUU
........((((...((((((((.......))))))))))))((-------((((..((----(.....)))...))).)))................... ( -15.80)
>DroSec_CAF1 4423 91 + 1
AAUCUGCAGGACACUGAAUGUUGUUACCUUCAACAUUCAUCUGC-------CAUGAUACUACAUAUUUAAGUUUUCAUUGGUUUAUUUUUAUUU---UUUG
.(((.(((((....(((((((((.......))))))))))))))-------...))).....................................---.... ( -15.90)
>DroSim_CAF1 4449 95 + 1
AAUCUGCAGGACACUGAAUAUUGUUACCUUCAACAUUCGUCUGCAUAGUAGUAUCAUAC----UAUUUAAGUUUCCAUCUUUUUAUUUUUAUUUU--UUUG
........(((.(((((((.(((.......))).))))......((((((......)))----)))...))).)))...................--.... ( -12.70)
>consensus
AAUCUGCAGGACACUGAAUGUUGUUACCUUCAACAUUCGUCUGC_______CAUGAUAC____UAUUUAAGUUUUCAUCGGUUUAUUUUUAUUUU__UUUG
.....(((((....(((((((((.......))))))))))))))......................................................... (-12.67 = -12.57 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 13,258,741 – 13,258,831
Length 90
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 81.38
Mean single sequence MFE -15.13
Consensus MFE -11.81
Energy contribution -11.70
Covariance contribution -0.11
Combinations/Pair 1.14
Mean z-score -2.22
Structure conservation index 0.78
SVM decision value 1.33
SVM RNA-class probability 0.942732
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13258741 90 - 22224390
AAAAAAAAAAUAAAAAUAAACCGAUGAAAACUUAAAAA----GUAACAUG-------GCAGACGAAUGCUGAAGGUAACAACAUUCAGUGUCCUGCAAAUU
......................................----........-------((((....((((((((.((....)).)))))))).))))..... ( -12.40)
>DroSec_CAF1 4423 91 - 1
CAAA---AAAUAAAAAUAAACCAAUGAAAACUUAAAUAUGUAGUAUCAUG-------GCAGAUGAAUGUUGAAGGUAACAACAUUCAGUGUCCUGCAGAUU
....---...............................(((((......(-------(((..(((((((((.......))))))))).))))))))).... ( -16.70)
>DroSim_CAF1 4449 95 - 1
CAAA--AAAAUAAAAAUAAAAAGAUGGAAACUUAAAUA----GUAUGAUACUACUAUGCAGACGAAUGUUGAAGGUAACAAUAUUCAGUGUCCUGCAGAUU
....--...................(....)....(((----(((......))))))((((((((((((((.......))))))))...)).))))..... ( -16.30)
>consensus
CAAA__AAAAUAAAAAUAAACCGAUGAAAACUUAAAUA____GUAUCAUG_______GCAGACGAAUGUUGAAGGUAACAACAUUCAGUGUCCUGCAGAUU
.........................................................((((((((((((((.......))))))))...)).))))..... (-11.81 = -11.70 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:15 2006