Locus 5905

Sequence ID 2L_DroMel_CAF1
Location 16,689,594 – 16,689,747
Length 153
Max. P 0.911479
window9372 window9373 window9374

overview

Window 2

Location 16,689,594 – 16,689,707
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.88
Mean single sequence MFE -23.48
Consensus MFE -7.36
Energy contribution -7.08
Covariance contribution -0.28
Combinations/Pair 1.25
Mean z-score -2.24
Structure conservation index 0.31
SVM decision value 0.76
SVM RNA-class probability 0.843026
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16689594 113 - 22407834
AUAUAUUUGAUUUACAGAAAAAUAUCUGACAGCCCAAUUAUCAGUAAGGGAGUCAAAUUUUAUUUACUGAA-------AAUUUAUCCGACAGGAUGUUAAUUGGUGUUAAGUGGAAUAAA
...(((((.((((.((((......))))..((((((((((((((((((.(((......))).)))))))).-------....(((((....))))).))))))).))))))).))))).. ( -28.60)
>DroSec_CAF1 144351 119 - 1
AUAUAUUUGAUUUACAGAAAAAUAUCUGACAGC-CAAUUAUCAGUAAGGGAGUCAAAUUUUAUUUACUGAUAUUACUGAAUUUAUCUGACAGGAUGUUAAUUGGUGUUAAGUGGAAUAAA
...(((((.(((((((((......))))...((-((((((((((((((.(((......))).))))))))............(((((....))))).))))))))..))))).))))).. ( -26.80)
>DroSim_CAF1 144286 119 - 1
AUAUAUUUGAUUUACAGAAAAAUAUCUGACAGC-CAAUUAUCAGUAAGGGAGUCAAAUUUUAUUUACUGAUAUAACUGAAUUUAUCUGACAGGAUGUUAAUUGGUGUUAAGUGGAAUAAA
...(((((.(((((((((......))))...((-((((((((((((((.(((......))).))))))))............(((((....))))).))))))))..))))).))))).. ( -26.80)
>DroEre_CAF1 144814 100 - 1
AUAAAUUCGAUGUACAAUAAAAUAUCUGACAGU-CUAUAAU------------CAGAUAUUAUGUACUGCAAU-------UUUAUCUGACAGGAUGAUAAUUAGUGUUGAAUUGAAUAAA
...(((((((((((((....(((((((((....-......)------------)))))))).))))).(((((-------(((((((....)))))).)))).))))))))))....... ( -21.30)
>DroYak_CAF1 144097 98 - 1
AUAAAUUCGAUGUACAGUAAAAUAUCUGUCAGC-CUUU-AU------------CAUAUAUUAUUUCCUGCUAU-------UUUAUCUGACAGGAUGUUAAUUGGUGUUAAAUAGAA-AAA
.....(((..((.((((........))))))..-.(((-(.------------(((..((((..((((((...-------.......).)))))...))))..))).))))..)))-... ( -13.90)
>consensus
AUAUAUUUGAUUUACAGAAAAAUAUCUGACAGC_CAAUUAUCAGUAAGGGAGUCAAAUUUUAUUUACUGAUAU_____AAUUUAUCUGACAGGAUGUUAAUUGGUGUUAAGUGGAAUAAA
...((((((((...(((........)))......................................................(((((....))))).........))))))))....... ( -7.36 =  -7.08 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,689,634 – 16,689,747
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.68
Mean single sequence MFE -24.46
Consensus MFE -8.12
Energy contribution -8.80
Covariance contribution 0.68
Combinations/Pair 1.26
Mean z-score -1.99
Structure conservation index 0.33
SVM decision value 0.41
SVM RNA-class probability 0.724739
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16689634 113 + 22407834
UU-------UUCAGUAAAUAAAAUUUGACUCCCUUACUGAUAAUUGGGCUGUCAGAUAUUUUUCUGUAAAUCAAAUAUAUUGUGAUGACAGCUGAAUGAGCAUGUUAAAUGCAGUCAAUU
..-------...............((((((............(((.((((((((((......)))....((((.........))))))))))).)))..((((.....)))))))))).. ( -24.60)
>DroSec_CAF1 144391 119 + 1
UUCAGUAAUAUCAGUAAAUAAAAUUUGACUCCCUUACUGAUAAUUG-GCUGUCAGAUAUUUUUCUGUAAAUCAAAUAUAUUGUGAUGACAGCUGAAUGAGCAAGUUAAAUGCAGUCAAUU
.(((....(((((((((................))))))))).(..-(((((((((......)))....((((.........))))))))))..).)))(((.......)))........ ( -24.39)
>DroSim_CAF1 144326 119 + 1
UUCAGUUAUAUCAGUAAAUAAAAUUUGACUCCCUUACUGAUAAUUG-GCUGUCAGAUAUUUUUCUGUAAAUCAAAUAUAUUGUGAUGACAGCUGAAUGAGCAAGUUAAAUGCAGUCAAUU
.(((....(((((((((................))))))))).(..-(((((((((......)))....((((.........))))))))))..).)))(((.......)))........ ( -24.39)
>DroEre_CAF1 144854 100 + 1
-------AUUGCAGUACAUAAUAUCUG------------AUUAUAG-ACUGUCAGAUAUUUUAUUGUACAUCGAAUUUAUUGUGAUGACAGCUGAAUGUGUCAGUUAAAUUCAGUUGAUU
-------..(((((((...((((((((------------((.....-...)))))))))).)))))))(((((.........))))).(((((((((...........)))))))))... ( -28.40)
>DroYak_CAF1 144136 99 + 1
-------AUAGCAGGAAAUAAUAUAUG------------AU-AAAG-GCUGACAGAUAUUUUACUGUACAUCGAAUUUAUUGUGAUGACAGCUGAAUGGGUCAGUUAUGGGCAGUCAAUU
-------..................((------------..-.(..-((((((...(((((..((((.(((((.........)))))))))..))))).))))))..)...))....... ( -20.50)
>consensus
UU_____AUAUCAGUAAAUAAAAUUUGACUCCCUUACUGAUAAUUG_GCUGUCAGAUAUUUUUCUGUAAAUCAAAUAUAUUGUGAUGACAGCUGAAUGAGCAAGUUAAAUGCAGUCAAUU
.........................((((..................(((((((.(((......((.....)).......)))..))))))).......(((.......))).))))... ( -8.12 =  -8.80 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 16,689,634 – 16,689,747
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.68
Mean single sequence MFE -20.42
Consensus MFE -6.02
Energy contribution -6.06
Covariance contribution 0.04
Combinations/Pair 1.14
Mean z-score -2.22
Structure conservation index 0.29
SVM decision value 1.08
SVM RNA-class probability 0.911479
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16689634 113 - 22407834
AAUUGACUGCAUUUAACAUGCUCAUUCAGCUGUCAUCACAAUAUAUUUGAUUUACAGAAAAAUAUCUGACAGCCCAAUUAUCAGUAAGGGAGUCAAAUUUUAUUUACUGAA-------AA
(((((...((((.....)))).......((((((....(((.....)))......(((......))))))))).))))).((((((((.(((......))).)))))))).-------.. ( -22.70)
>DroSec_CAF1 144391 119 - 1
AAUUGACUGCAUUUAACUUGCUCAUUCAGCUGUCAUCACAAUAUAUUUGAUUUACAGAAAAAUAUCUGACAGC-CAAUUAUCAGUAAGGGAGUCAAAUUUUAUUUACUGAUAUUACUGAA
...(((..(((.......))))))((((((((((....(((.....)))......(((......)))))))))-....((((((((((.(((......))).))))))))))....)))) ( -23.70)
>DroSim_CAF1 144326 119 - 1
AAUUGACUGCAUUUAACUUGCUCAUUCAGCUGUCAUCACAAUAUAUUUGAUUUACAGAAAAAUAUCUGACAGC-CAAUUAUCAGUAAGGGAGUCAAAUUUUAUUUACUGAUAUAACUGAA
...(((..(((.......))))))((((((((((....(((.....)))......(((......)))))))))-....((((((((((.(((......))).))))))))))....)))) ( -23.70)
>DroEre_CAF1 144854 100 - 1
AAUCAACUGAAUUUAACUGACACAUUCAGCUGUCAUCACAAUAAAUUCGAUGUACAAUAAAAUAUCUGACAGU-CUAUAAU------------CAGAUAUUAUGUACUGCAAU-------
.......((((((((..(((((........)))))......))))))))..(((((....(((((((((....-......)------------)))))))).)))))......------- ( -18.30)
>DroYak_CAF1 144136 99 - 1
AAUUGACUGCCCAUAACUGACCCAUUCAGCUGUCAUCACAAUAAAUUCGAUGUACAGUAAAAUAUCUGUCAGC-CUUU-AU------------CAUAUAUUAUUUCCUGCUAU-------
................(((((..(((..(((((((((...........)))).)))))..)))....))))).-....-..------------....................------- ( -13.70)
>consensus
AAUUGACUGCAUUUAACUUGCUCAUUCAGCUGUCAUCACAAUAUAUUUGAUUUACAGAAAAAUAUCUGACAGC_CAAUUAUCAGUAAGGGAGUCAAAUUUUAUUUACUGAUAU_____AA
............................(((((((...............................)))))))............................................... ( -6.02 =  -6.06 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:01 2006