Locus 5148

Sequence ID 3R_DroMel_CAF1
Location 13,537,823 – 13,537,920
Length 97
Max. P 0.997469
window8401 window8402

overview

Window 1

Location 13,537,823 – 13,537,920
Length 97
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 71.63
Mean single sequence MFE -13.88
Consensus MFE -7.04
Energy contribution -6.71
Covariance contribution -0.33
Combinations/Pair 1.15
Mean z-score -1.96
Structure conservation index 0.51
SVM decision value 0.24
SVM RNA-class probability 0.650615
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13537823 97 + 27905053
GC--GAAACCUCAUGAUUACCUCUCAUUUAGGUUCAUCUAUACAUUAAUCAUAAGGCAAGAUAACCAAUUUGUAAAUCUUCUAAAUAAAUCUUCUACCA
..--(((.(((.((((((((((.......)))).............)))))).))).(((((.............)))))...........)))..... (  -8.43)
>DroSec_CAF1 12709 82 + 1
GC--CAAACCUCACGAUUACCU--AACGUAGGUUUACGUAUACAUUAAUCGUGAGGUAAGAUAACAAAUUUGUAAAUU-------------UUCUAUCA
..--...((((((((((((...--.(((((....)))))......))))))))))))..((((..(((((....))))-------------)..)))). ( -22.90)
>DroSim_CAF1 9634 86 + 1
UUUUUACCUCUCACGUUUACCUCUCAUGUAGGUUUUCAUAUACAUUAAUCGUAAGGUAAGAUAACAAAUUUGUAAAUC-------------CUCUAUCA
.((((((((.....(...(((((....).))))...)...(((.......))))))))))).................-------------........ ( -10.30)
>consensus
GC__CAAACCUCACGAUUACCUCUCAUGUAGGUUUACAUAUACAUUAAUCGUAAGGUAAGAUAACAAAUUUGUAAAUC_____________UUCUAUCA
........(((.((((((((((.......)))).............)))))).)))........................................... ( -7.04 =  -6.71 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 13,537,823 – 13,537,920
Length 97
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 71.63
Mean single sequence MFE -19.20
Consensus MFE -12.95
Energy contribution -14.07
Covariance contribution 1.12
Combinations/Pair 1.28
Mean z-score -1.93
Structure conservation index 0.67
SVM decision value 2.87
SVM RNA-class probability 0.997469
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13537823 97 - 27905053
UGGUAGAAGAUUUAUUUAGAAGAUUUACAAAUUGGUUAUCUUGCCUUAUGAUUAAUGUAUAGAUGAACCUAAAUGAGAGGUAAUCAUGAGGUUUC--GC
.....(((...........(((((..((......)).)))))(((((((((((.............((((.......))))))))))))))))))--.. ( -17.41)
>DroSec_CAF1 12709 82 - 1
UGAUAGAA-------------AAUUUACAAAUUUGUUAUCUUACCUCACGAUUAAUGUAUACGUAAACCUACGUU--AGGUAAUCGUGAGGUUUG--GC
.(((((.(-------------((((....))))).)))))..((((((((((((......(((((....))))).--...))))))))))))...--.. ( -25.50)
>DroSim_CAF1 9634 86 - 1
UGAUAGAG-------------GAUUUACAAAUUUGUUAUCUUACCUUACGAUUAAUGUAUAUGAAAACCUACAUGAGAGGUAAACGUGAGAGGUAAAAA
.(((((..-------------((((....))))..)))))(((((((((.....(((((..(....)..))))).....)))).(....).)))))... ( -14.70)
>consensus
UGAUAGAA_____________GAUUUACAAAUUUGUUAUCUUACCUUACGAUUAAUGUAUACGUAAACCUACAUGAGAGGUAAUCGUGAGGUUUA__GC
..........................................((((((((((((.....((((((....)))))).....))))))))))))....... (-12.95 = -14.07 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:34 2006