Locus 6465

Sequence ID	2R_DroMel_CAF1
Location	20,213,434 – 20,213,527
Length	93
Max. P	0.930370

overview

Window 9

Location	20,213,434 – 20,213,527
Length	93
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	80.71
Mean single sequence MFE	-25.20
Consensus MFE	-15.95
Energy contribution	-17.31
Covariance contribution	1.36
Combinations/Pair	1.04
Mean z-score	-1.96
Structure conservation index	0.63
SVM decision value	0.53
SVM RNA-class probability	0.771127
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20213434 93 + 20766785
AUUGGGGACCUU--CACCCAUACGAGCCUGUGGCGGAGGGCUAGGCUCGUAUGUAUGCAAAUAAGUUAUGAUUUGAUUUGUACCAUUGCAGUAGA
...(((......--..)))((((((((((..(((.....)))))))))))))...(((((((((((((.....))))))))....)))))..... ( -31.20)
>DroSec_CAF1 6578 93 + 1
AUUGGGGACCUU--CACACAUACGAGCCUGUGGCGCAGGGCUAGGCUCGUAUGUAUGCAAAUAAGUUAUGAUUUGAUUUGUACCAUUGCAGUAGA
...(....)...--...((((((((((((..(((.....))))))))))))))).(((((((((((((.....))))))))....)))))..... ( -31.00)
>DroSim_CAF1 4771 93 + 1
AUUGGGGACCUU--CCCACAUACGAGCCUGUGGCGCAGGGCUAGGCUCGUAUGUAUGCAAAUAAGUUAUGAUUUGAUUUGUACCAUUGCAGUAGA
....(((.....--)))((((((((((((..(((.....))))))))))))))).(((((((((((((.....))))))))....)))))..... ( -35.20)
>DroEre_CAF1 7618 80 + 1
AUCGAGGACCUU--CACACACACGAGCGC-------------AGGCUCGUAUGUAUGCAAAUAAGUUAUGAUUUGAUUUGCACCUUUGCAGUAGA
...((((.....--...(((.((((((..-------------..)))))).))).(((((((((((....)))).)))))))))))......... ( -21.30)
>DroYak_CAF1 5486 81 + 1
AUUGGGGACCUU--CACACAUACGAACAUG------------AGGCUCGUAUGUAUGCAAAUAAGUUAUGAUUUGAUUUGUACCAUUGCAGUAGA
...(....)...--...((((((((.(...------------..).)))))))).(((((((((((((.....))))))))....)))))..... ( -17.10)
>DroAna_CAF1 4581 76 + 1
-------CCUUUUUCGCAGAGGCAUAC------------GCUAGGCUCGUAUGUAUGCAAAUAAGUUAUGAUUUGAUUUGUACCAUUGCAGUAAA
-------........(((...((((((------------(.......))))))).)))..((((((((.....)))))))).............. ( -15.40)
>consensus
AUUGGGGACCUU__CACACAUACGAGCCUG_________GCUAGGCUCGUAUGUAUGCAAAUAAGUUAUGAUUUGAUUUGUACCAUUGCAGUAGA
.................((((((((((.................)))))))))).(((((((((((((.....))))))))....)))))..... (-15.95 = -17.31 +   1.36)

alignment

secondary structure

dotplot

Window 0

Location	20,213,434 – 20,213,527
Length	93
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	80.71
Mean single sequence MFE	-22.97
Consensus MFE	-15.36
Energy contribution	-15.72
Covariance contribution	0.36
Combinations/Pair	1.16
Mean z-score	-2.65
Structure conservation index	0.67
SVM decision value	1.20
SVM RNA-class probability	0.930370
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20213434 93 - 20766785
UCUACUGCAAUGGUACAAAUCAAAUCAUAACUUAUUUGCAUACAUACGAGCCUAGCCCUCCGCCACAGGCUCGUAUGGGUG--AAGGUCCCCAAU
..((((((((.(((...............)))...))))...(((((((((((.((.....))...)))))))))))))))--............ ( -24.46)
>DroSec_CAF1 6578 93 - 1
UCUACUGCAAUGGUACAAAUCAAAUCAUAACUUAUUUGCAUACAUACGAGCCUAGCCCUGCGCCACAGGCUCGUAUGUGUG--AAGGUCCCCAAU
...........((.((....(((((........)))))(((((((((((((((.((.....))...)))))))))))))))--...)).)).... ( -27.90)
>DroSim_CAF1 4771 93 - 1
UCUACUGCAAUGGUACAAAUCAAAUCAUAACUUAUUUGCAUACAUACGAGCCUAGCCCUGCGCCACAGGCUCGUAUGUGGG--AAGGUCCCCAAU
.....(((((.(((...............)))...))))).((((((((((((.((.....))...))))))))))))(((--......)))... ( -28.56)
>DroEre_CAF1 7618 80 - 1
UCUACUGCAAAGGUGCAAAUCAAAUCAUAACUUAUUUGCAUACAUACGAGCCU-------------GCGCUCGUGUGUGUG--AAGGUCCUCGAU
.....((((....)))).....................(((((((((((((..-------------..)))))))))))))--............ ( -23.00)
>DroYak_CAF1 5486 81 - 1
UCUACUGCAAUGGUACAAAUCAAAUCAUAACUUAUUUGCAUACAUACGAGCCU------------CAUGUUCGUAUGUGUG--AAGGUCCCCAAU
...........((.((....(((((........)))))(((((((((((((..------------...)))))))))))))--...)).)).... ( -20.00)
>DroAna_CAF1 4581 76 - 1
UUUACUGCAAUGGUACAAAUCAAAUCAUAACUUAUUUGCAUACAUACGAGCCUAGC------------GUAUGCCUCUGCGAAAAAGG-------
..((((.....))))...............(((.((((((..((((((.......)------------)))))....)))))).))).------- ( -13.90)
>consensus
UCUACUGCAAUGGUACAAAUCAAAUCAUAACUUAUUUGCAUACAUACGAGCCUAGC_________CAGGCUCGUAUGUGUG__AAGGUCCCCAAU
.....(((((.(((...............)))...)))))(((((((((((.................)))))))))))................ (-15.36 = -15.72 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:39 2006