Locus 107

Sequence ID 2R_DroMel_CAF1
Location 1,352,732 – 1,352,852
Length 120
Max. P 0.992408
window225 window226

overview

Window 5

Location 1,352,732 – 1,352,852
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 80.30
Mean single sequence MFE -30.65
Consensus MFE -21.49
Energy contribution -20.93
Covariance contribution -0.56
Combinations/Pair 1.23
Mean z-score -2.63
Structure conservation index 0.70
SVM decision value 2.33
SVM RNA-class probability 0.992408
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1352732 120 + 20766785
UAAUAUGUACGUCGCAGUGUGUGUACGUGACUGCAUUUAAGUGCAUAGUUGUGUAGAACAGCUCUCACACUCACACGCACACUCGGAAUCGCACUCACACAUUCGUACUAGCACUCGCAC
......((((..((.(((((((((..((((.(((((....))))).((((((.....)))))).......)))))))))))))))((((.(........)))))))))..((....)).. ( -32.80)
>DroSim_CAF1 49051 96 + 1
UAAUAUGUACGUCGCAGUGUGUGUACGUGACUGCAUUUAAGUGCAUAGUUGUGUAGAGCAGC----ACACUCACACUCACACA------------------CUCGCAC--ACACUCGCAC
.............(((((((((((..(((..(((((....)))))..((.((((.(((....----...)))))))..)).))------------------)..))))--))))).)).. ( -30.70)
>DroEre_CAF1 51509 102 + 1
UAAUAUGUACGUCGCAGUGUGUGUACGUGACUGCAUUUAAGUGCAUAGUUGUGUAGAACAGCUCGCACACUCACGCUCAC--UAGGA--------------AUCACAC--ACACACACAC
................((((((((..((((..........((((..((((((.....)))))).))))..((.(......--..)))--------------.))))..--)))))))).. ( -27.80)
>DroYak_CAF1 38771 100 + 1
UAAUAUGUACGUCGCAGUGUGUGUACGUGACUGCAUUUAAGUGCAUAGUUGUGUAGAACAGCUCUCACACUCACAC--GC--UGAAA--------------CUCACAC--ACACACACAC
.....(((..((..(((((((((...((((.(((((....))))).((((((.....)))))).))))...)))))--))--))..)--------------)..))).--.......... ( -31.30)
>consensus
UAAUAUGUACGUCGCAGUGUGUGUACGUGACUGCAUUUAAGUGCAUAGUUGUGUAGAACAGCUCUCACACUCACACUCAC__U_GGA______________CUCACAC__ACACACACAC
................((((((((..((((.(((((....)))))..(((((.....)))))........................................))))....)))))))).. (-21.49 = -20.93 +  -0.56)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,352,732 – 1,352,852
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.30
Mean single sequence MFE -34.98
Consensus MFE -18.50
Energy contribution -18.62
Covariance contribution 0.12
Combinations/Pair 1.14
Mean z-score -2.37
Structure conservation index 0.53
SVM decision value 0.39
SVM RNA-class probability 0.719126
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1352732 120 - 20766785
GUGCGAGUGCUAGUACGAAUGUGUGAGUGCGAUUCCGAGUGUGCGUGUGAGUGUGAGAGCUGUUCUACACAACUAUGCACUUAAAUGCAGUCACGUACACACACUGCGACGUACAUAUUA
(((((.(((....)))(...(((((.(((((....)..((((((((.(((((((...((.(((.....))).))..))))))).)))))..))))))).)))))..)..)))))...... ( -36.40)
>DroSim_CAF1 49051 96 - 1
GUGCGAGUGU--GUGCGAG------------------UGUGUGAGUGUGAGUGU----GCUGCUCUACACAACUAUGCACUUAAAUGCAGUCACGUACACACACUGCGACGUACAUAUUA
.....(((((--(((((((------------------((((((..(((((((((----(......))))).....((((......)))).)))))..))))))))....)))))))))). ( -36.50)
>DroEre_CAF1 51509 102 - 1
GUGUGUGUGU--GUGUGAU--------------UCCUA--GUGAGCGUGAGUGUGCGAGCUGUUCUACACAACUAUGCACUUAAAUGCAGUCACGUACACACACUGCGACGUACAUAUUA
((((((((((--(((((((--------------(.(..--..).((((....(((((((.(((.....))).)).)))))....)))))))))))))))))))).))............. ( -33.10)
>DroYak_CAF1 38771 100 - 1
GUGUGUGUGU--GUGUGAG--------------UUUCA--GC--GUGUGAGUGUGAGAGCUGUUCUACACAACUAUGCACUUAAAUGCAGUCACGUACACACACUGCGACGUACAUAUUA
((((((((((--((((((.--------------(....--((--((.(((((((...((.(((.....))).))..))))))).))))).)))))))))))))).))............. ( -33.90)
>consensus
GUGCGAGUGU__GUGCGAG______________UCC_A__GUGAGUGUGAGUGUGAGAGCUGUUCUACACAACUAUGCACUUAAAUGCAGUCACGUACACACACUGCGACGUACAUAUUA
((((((((((..(((((...........................((((((((((....)).)))).)))).....((((......))))....))))))))))).)).)).......... (-18.50 = -18.62 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:27:25 2006