Locus 5123

Sequence ID 3R_DroMel_CAF1
Location 13,485,287 – 13,485,397
Length 110
Max. P 0.625097
window8359

overview

Window 9

Location 13,485,287 – 13,485,397
Length 110
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.78
Mean single sequence MFE -27.44
Consensus MFE -13.51
Energy contribution -13.45
Covariance contribution -0.06
Combinations/Pair 1.06
Mean z-score -2.08
Structure conservation index 0.49
SVM decision value 0.19
SVM RNA-class probability 0.625097
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13485287 110 + 27905053
AA--AACAAAAUUCGGCUC---GGGGG-----AAUCCACGAAAACUCCCCUCGUCGCGUUUUAUAUGAGACAAACUAAUUGUCUUCUACUUGUAAUGUGUUUUUAAGCGCAGCCACGCUU
..--..........(((((---(((((-----(............))))).))..((((((.(((((((((((.....)))))))...........))))....))))))))))...... ( -26.80)
>DroPse_CAF1 45751 99 + 1
AAGGAACACAAAUC---------------------CUCCAGCGACUCCCCUGGCUACGUUUUAUAUGAGACAAACUAAUUGUCUUGUACUUGUAAUGUGUUUUUAAGCACAGCCACGCUU
.((((.......))---------------------))..((((.......((((((((.....((..((((((.....))))))..))..)))).((((((....)))))))))))))). ( -24.31)
>DroEre_CAF1 31838 108 + 1
AA--AACAAAAUUCGGCUC---GGGGG-----AAUC-CCGAAAACCCCCCU-GUCCCGUUUUAUAUGAGACAAACUAAUUGUCUUGUACUUGUAAUGUGUUUUUAAGCGCAGCCACGUUU
..--.((((((..(((..(---(((((-----....-.........)))))-)..)))..)).((..((((((.....))))))..)).))))..((((((....))))))......... ( -29.42)
>DroYak_CAF1 39879 109 + 1
AA--AAAGAAAUUCGGCUA---GGGGG-----AAUCUCCGAAAACUCCCCU-GUCGCGUUUUAUAUGAGACAAACUAAUUGUCUUGUACUUGUAAUGUGUUUUUAAGCGCAGCCACGCUU
..--...(((((.((((.(---(((((-----.............))))))-)))).))))).((..((((((.....))))))..))...((..((((((....))))))...)).... ( -29.42)
>DroAna_CAF1 36277 111 + 1
GA--AACAAAAUUUGUCUUUUGGGGGGGAGAAAAUCCC----AA--CCCCU-CCUCCGCAUUAUAUGAGACAAACUAAUUGUCUUGUACUUGUAAUGUGUUUUUAAGCGCAGCCACGCUC
((--(((..............((((((((.....))))----..--)))).-.....((((((((..((((((.....))))))..)....))))))))))))..((((......)))). ( -30.40)
>DroPer_CAF1 42864 99 + 1
AAGGAACACAAAUC---------------------CUCCAGCGACUCCCCUGGCUACGUUUUAUAUGAGACAAACUAAUUGUCUUGUACUUGUAAUGUGUUUUUAAGCACAGCCACGCUU
.((((.......))---------------------))..((((.......((((((((.....((..((((((.....))))))..))..)))).((((((....)))))))))))))). ( -24.31)
>consensus
AA__AACAAAAUUCGGCU____GGGGG_____AAUCUCCGAAAACUCCCCU_GCCACGUUUUAUAUGAGACAAACUAAUUGUCUUGUACUUGUAAUGUGUUUUUAAGCGCAGCCACGCUU
...............................................................((((((((((.....))))))))))...((..((((((....))))))...)).... (-13.51 = -13.45 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:52 2006