Locus 2025

Sequence ID X_DroMel_CAF1
Location 5,550,619 – 5,550,709
Length 90
Max. P 0.980141
window3296 window3297

overview

Window 6

Location 5,550,619 – 5,550,709
Length 90
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 73.78
Mean single sequence MFE -22.10
Consensus MFE -13.38
Energy contribution -13.83
Covariance contribution 0.45
Combinations/Pair 1.14
Mean z-score -2.06
Structure conservation index 0.61
SVM decision value 1.85
SVM RNA-class probability 0.980141
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5550619 90 + 22224390
--------UAUGACUAAGAACUUGUUGGUUAAUAAUCGUAGCAUAGUUUUUGGCGCUAUGUUGGGGUUUGUUGUACUAAGUUGGAGCCACAAAACUUU
--------(((((.((..((((....))))..)).)))))....((((((((((.(((..((((...........))))..))).)))).)))))).. ( -18.80)
>DroSec_CAF1 6097 90 + 1
--------UAUGACUAAGAACUAGUUGGUUAAUAAUCAUAGCAUAGUUUUUGGCGCUAAGUUGGGGUUUAUAGUACAAACUUAGUACCACAGAACUUU
--------(((((.((..((((....))))..)).)))))....(((((((((..(((((((...((.......)).)))))))..))).)))))).. ( -21.90)
>DroYak_CAF1 8658 84 + 1
AUGUAAAAUAUGGCUAAGAACUCGUUGGCUAAAAAUCAUAGCAUAGUUUUUGGCGCUAAGUUGGGC--------------UUAGUGCCUAAGAACUUU
..........((((((((....).))))))).............((((((((((((((((.....)--------------)))))))).))))))).. ( -25.60)
>consensus
________UAUGACUAAGAACUAGUUGGUUAAUAAUCAUAGCAUAGUUUUUGGCGCUAAGUUGGGGUUU_U_GUAC_AA_UUAGUGCCACAGAACUUU
..........(((((((.......))))))).............(((((((((((((((.....................))))))))).)))))).. (-13.38 = -13.83 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 5,550,619 – 5,550,709
Length 90
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 73.78
Mean single sequence MFE -16.49
Consensus MFE -8.87
Energy contribution -10.43
Covariance contribution 1.56
Combinations/Pair 1.09
Mean z-score -2.34
Structure conservation index 0.54
SVM decision value 1.46
SVM RNA-class probability 0.955868
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5550619 90 - 22224390
AAAGUUUUGUGGCUCCAACUUAGUACAACAAACCCCAACAUAGCGCCAAAAACUAUGCUACGAUUAUUAACCAACAAGUUCUUAGUCAUA--------
..((((((.((((...............................)))))))))).......(((((..(((......)))..)))))...-------- ( -12.08)
>DroSec_CAF1 6097 90 - 1
AAAGUUCUGUGGUACUAAGUUUGUACUAUAAACCCCAACUUAGCGCCAAAAACUAUGCUAUGAUUAUUAACCAACUAGUUCUUAGUCAUA--------
..((((...(((..(((((((.((.......))...)))))))..)))..))))....((((((((..(((......)))..))))))))-------- ( -20.40)
>DroYak_CAF1 8658 84 - 1
AAAGUUCUUAGGCACUAA--------------GCCCAACUUAGCGCCAAAAACUAUGCUAUGAUUUUUAGCCAACGAGUUCUUAGCCAUAUUUUACAU
.(((..(((.(((.((((--------------(.....))))).))).........((((.......))))....)))..)))............... ( -17.00)
>consensus
AAAGUUCUGUGGCACUAA_UU_GUAC_A_AAACCCCAACUUAGCGCCAAAAACUAUGCUAUGAUUAUUAACCAACAAGUUCUUAGUCAUA________
..((((...((((.((((.....................)))).))))..))))....((((((((..(((......)))..))))))))........ ( -8.87 = -10.43 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:29 2006