Locus 4911

Sequence ID	X_DroMel_CAF1
Location	12,786,996 – 12,787,088
Length	92
Max. P	0.922872

overview

Window 9

Location	12,786,996 – 12,787,088
Length	92
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	84.18
Mean single sequence MFE	-27.68
Consensus MFE	-18.00
Energy contribution	-17.84
Covariance contribution	-0.16
Combinations/Pair	1.24
Mean z-score	-2.63
Structure conservation index	0.65
SVM decision value	1.15
SVM RNA-class probability	0.922872
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12786996 92 + 22224390
UGACAAU-GCACAAGUUACCCAACUUUACCAGGA-GCCAGCUGAGCUCAGUUGGCGUGUAAAGUGAGAUGAACGCUAUCCAUUAAAU----UGGAGAU
......(-(((((((((....)))))........-((((((((....))))))))))))).((((.......)))).((((......----))))... ( -26.80)
>DroSec_CAF1 1717 92 + 1
UGACAAU-GCACAAGUUACCCAACUUUACCAGGA-GCCAGCUGAGCUCAGCUGGCGUGUAAAGUGGUAUGAACGCUAUCCAUUAAAU----UGGAGAU
.......-((......((((..(((((((.....-((((((((....))))))))..))))))))))).....))..((((......----))))... ( -31.10)
>DroSim_CAF1 2757 93 + 1
UGACAAU-GCACAAGUUACUCAACUUUACCAAUACGCCAGCUGACCUCAUCUGGCGUGUAAAGUGGUAUGAACGCUAUCCAUUAAAU----UGGAUAU
.......-((..(((((....)))))((((((((((((((.((....)).)))))))))....))))).....))((((((......----)))))). ( -28.80)
>DroEre_CAF1 1622 90 + 1
UGACAAU-GCACAAGUUACCCAAUUUAACCAGGA-GGCAGCUGAGCUCAGCUGGUGUGUCGAGUGGGCUGAGCACUAUCCAUUAAAU----UGGAG--
.......-...........(((((((((...(((-....(((.((((((.((.(.....).)))))))).)))....))).))))))----)))..-- ( -27.70)
>DroYak_CAF1 4034 95 + 1
UGACAAUGGCACAAGUUAGCCAACUUUAGCUAGA-GGCAGCUGAGCUCAGCUGGUGCGUAAAGUGGUAUGAAUACUAUCCAUUAAAUAACAUAAAA--
.....(((((((...(((((........))))).-..((((((....))))))))))....(((((.(((.....))))))))......)))....-- ( -24.00)
>consensus
UGACAAU_GCACAAGUUACCCAACUUUACCAGGA_GCCAGCUGAGCUCAGCUGGCGUGUAAAGUGGUAUGAACGCUAUCCAUUAAAU____UGGAGAU
........(((((((((....))))).........((((((((....))))))))))))..((((.......))))...................... (-18.00 = -17.84 +  -0.16)

alignment

secondary structure

dotplot

Window 0

Location	12,786,996 – 12,787,088
Length	92
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	84.18
Mean single sequence MFE	-27.40
Consensus MFE	-17.06
Energy contribution	-18.06
Covariance contribution	1.00
Combinations/Pair	1.20
Mean z-score	-2.71
Structure conservation index	0.62
SVM decision value	1.06
SVM RNA-class probability	0.907891
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12786996 92 - 22224390
AUCUCCA----AUUUAAUGGAUAGCGUUCAUCUCACUUUACACGCCAACUGAGCUCAGCUGGC-UCCUGGUAAAGUUGGGUAACUUGUGC-AUUGUCA
.......----...(((((.((((.(((.((((.(((((((..((((.(((....))).))))-.....))))))).))))))))))).)-))))... ( -27.00)
>DroSec_CAF1 1717 92 - 1
AUCUCCA----AUUUAAUGGAUAGCGUUCAUACCACUUUACACGCCAGCUGAGCUCAGCUGGC-UCCUGGUAAAGUUGGGUAACUUGUGC-AUUGUCA
.......----...(((((.((((.(((....(((((((((..((((((((....))))))))-.....)))))).)))..))))))).)-))))... ( -31.80)
>DroSim_CAF1 2757 93 - 1
AUAUCCA----AUUUAAUGGAUAGCGUUCAUACCACUUUACACGCCAGAUGAGGUCAGCUGGCGUAUUGGUAAAGUUGAGUAACUUGUGC-AUUGUCA
.((((((----......))))))(((....((((((((((((((((((.((....)).)))))))....)))))).)).))).....)))-....... ( -27.90)
>DroEre_CAF1 1622 90 - 1
--CUCCA----AUUUAAUGGAUAGUGCUCAGCCCACUCGACACACCAGCUGAGCUCAGCUGCC-UCCUGGUUAAAUUGGGUAACUUGUGC-AUUGUCA
--.....----........((((((((.(((((((..........((((((....))))))((-....))......)))))....)).))-)))))). ( -28.10)
>DroYak_CAF1 4034 95 - 1
--UUUUAUGUUAUUUAAUGGAUAGUAUUCAUACCACUUUACGCACCAGCUGAGCUCAGCUGCC-UCUAGCUAAAGUUGGCUAACUUGUGCCAUUGUCA
--.................((((((.........((((((.((..((((((....))))))..-....)))))))).(((........))))))))). ( -22.20)
>consensus
AUCUCCA____AUUUAAUGGAUAGCGUUCAUACCACUUUACACGCCAGCUGAGCUCAGCUGGC_UCCUGGUAAAGUUGGGUAACUUGUGC_AUUGUCA
...................((((((((.....(((((((((..((((((((....))))))))......)))))).))).......))))...)))). (-17.06 = -18.06 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:52 2006