Locus 6949

Sequence ID X_DroMel_CAF1
Location 17,413,870 – 17,413,967
Length 97
Max. P 0.936342
window11353 window11354

overview

Window 3

Location 17,413,870 – 17,413,967
Length 97
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 89.34
Mean single sequence MFE -27.95
Consensus MFE -22.00
Energy contribution -22.12
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -1.66
Structure conservation index 0.79
SVM decision value 0.33
SVM RNA-class probability 0.692834
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17413870 97 + 22224390
GUGUGUGUGAAUGUGUUUGGCGUGCGGCUAACACUGUU---GUUGUCGAAUUGUUGUUGUUGUUGGUAAAAACUUGCGCGCCAUUACUAACAGUAAAUUA
.....(((....(((..(((((((((((.((((....)---))))))..............(((......)))..)))))))).)))..)))........ ( -23.40)
>DroSec_CAF1 7504 97 + 1
GUGUGUGUGAGUGUGUUUGGCGUGCGGCUAACACUGUU---GUUGUCCAAUUGUUGUUGUUGUUGGUAACAACUUGCGCGCCAUUACUAACAGUAAAUUG
.....(((.((((....((((((((((.(((((....)---)))).)).......(((((((....)))))))..)))))))).)))).)))........ ( -31.00)
>DroSim_CAF1 7578 97 + 1
GUGUGUGUGAGUGUGUUUGACGUGCGGCUAACACUGUU---GUUGUCCAAUUGUUGUUGUUGUUGGUAACAACUUGCGCGCCAUUACUAACAGUAAAUUG
(.(((((..(((((..(..(((.(((((.((((..(((---(.....))))))))))))))))..)..)).)))..)))))).((((.....)))).... ( -26.00)
>DroYak_CAF1 7457 94 + 1
GUGUGU------GUGUUUGGCGUGCGGCUAACUCCGUUGUUGUUGCCCAAUUGUAGUUGUUGUUGGUAACAACGUGCGCGCCAUUAUUAACAGUAACUUA
...(((------.....((((((((((......))...(((((((((((((.......))))..)))))))))..))))))))......)))........ ( -31.40)
>consensus
GUGUGUGUGAGUGUGUUUGGCGUGCGGCUAACACUGUU___GUUGUCCAAUUGUUGUUGUUGUUGGUAACAACUUGCGCGCCAUUACUAACAGUAAAUUA
...(((......(((..(((((((((((.(((.........))))))........(((((((....)))))))..)))))))).)))..)))........ (-22.00 = -22.12 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 17,413,870 – 17,413,967
Length 97
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 89.34
Mean single sequence MFE -20.40
Consensus MFE -15.66
Energy contribution -15.98
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -2.58
Structure conservation index 0.77
SVM decision value 1.25
SVM RNA-class probability 0.936342
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17413870 97 - 22224390
UAAUUUACUGUUAGUAAUGGCGCGCAAGUUUUUACCAACAACAACAACAAUUCGACAAC---AACAGUGUUAGCCGCACGCCAAACACAUUCACACACAC
....((((.....))))(((((.((..(((......)))..............((((..---.....))))....)).)))))................. ( -14.00)
>DroSec_CAF1 7504 97 - 1
CAAUUUACUGUUAGUAAUGGCGCGCAAGUUGUUACCAACAACAACAACAAUUGGACAAC---AACAGUGUUAGCCGCACGCCAAACACACUCACACACAC
........(((.(((..(((((.((..((((((......)))))).......((..(((---(....))))..)))).))))).....))).)))..... ( -23.60)
>DroSim_CAF1 7578 97 - 1
CAAUUUACUGUUAGUAAUGGCGCGCAAGUUGUUACCAACAACAACAACAAUUGGACAAC---AACAGUGUUAGCCGCACGUCAAACACACUCACACACAC
........(((.(((..(((((.((..((((((......)))))).......((..(((---(....))))..)))).))))).....))).)))..... ( -20.90)
>DroYak_CAF1 7457 94 - 1
UAAGUUACUGUUAAUAAUGGCGCGCACGUUGUUACCAACAACAACUACAAUUGGGCAACAACAACGGAGUUAGCCGCACGCCAAACAC------ACACAC
...((...((((.....(((((.((..((((((.((((............))))..))))))...((......)))).))))))))).------..)).. ( -23.10)
>consensus
CAAUUUACUGUUAGUAAUGGCGCGCAAGUUGUUACCAACAACAACAACAAUUGGACAAC___AACAGUGUUAGCCGCACGCCAAACACACUCACACACAC
.................(((((.((..((((((......)))))).......((..(((.........)))..)))).)))))................. (-15.66 = -15.98 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:31 2006