Locus 320

Sequence ID X_DroMel_CAF1
Location 1,009,570 – 1,009,680
Length 110
Max. P 0.879842
window485 window486

overview

Window 5

Location 1,009,570 – 1,009,680
Length 110
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 88.74
Mean single sequence MFE -29.00
Consensus MFE -21.17
Energy contribution -21.18
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.73
SVM decision value 0.72
SVM RNA-class probability 0.833500
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1009570 110 + 22224390
UUCUCCGAUUCUCCUUUUCUCUCCCACCCACACGUCUAACAUG-UAGAUAAAUCUGCUCGCGUAUUUCUCGCAGCGAUUUGCCAUAGCUCAGGCAGAGAGAUAGAUGGAGA
.........(((((...((((((..........(((((.....-)))))(((((.(((.(((.......)))))))))))(((........))).)))))).....))))) ( -30.90)
>DroSec_CAF1 95037 103 + 1
-----CGAUUCUCCUUUU--CUCCCGCCCACCCAUCUAACAUG-UAGAUAAAUCUGCUCGCGUAUUUUUCGCAGCGAUUUGCCAUAGCUCAUGCAGAGAGAUAGAUGGAGA
-----....(((((.(((--(((..((......(((((.....-)))))(((((.(((.(((.......)))))))))))))....((....)).)))))).....))))) ( -25.80)
>DroSim_CAF1 72230 108 + 1
UUCUCCGAUUCUCCUUUU--CUCCCGCCCACCCAUCUAACAUG-UAGAUAAAUCUGCUCGCGUAUUUUUCGCAGCGAUUUGCCAUAGCUCAUGCAGAGAGAUAGAUGGAGA
.((((((..(((...(((--(((..((......(((((.....-)))))(((((.(((.(((.......)))))))))))))....((....)).)))))).))))))))) ( -27.80)
>DroEre_CAF1 106331 104 + 1
UUCUCCAUUUCUCCGUUU--CUCC----CACCCC-UGGACAUGUUAGAUAAAUCUGCUCGCGUAUUUCUCGCAGCGAUUUGCCAUAGCUCAUGCAGAGAGAUAGAUGGAGA
.(((((((((....((((--((((----((....-)))....((((..((((((.(((.(((.......))))))))))))...)))).......)))))))))))))))) ( -31.50)
>consensus
UUCUCCGAUUCUCCUUUU__CUCCCGCCCACCCAUCUAACAUG_UAGAUAAAUCUGCUCGCGUAUUUCUCGCAGCGAUUUGCCAUAGCUCAUGCAGAGAGAUAGAUGGAGA
.........(((((......(((.......................(.((((((.(((.(((.......)))))))))))).)...((....))...)))......))))) (-21.17 = -21.18 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,009,570 – 1,009,680
Length 110
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 88.74
Mean single sequence MFE -35.28
Consensus MFE -25.01
Energy contribution -26.32
Covariance contribution 1.31
Combinations/Pair 1.03
Mean z-score -2.68
Structure conservation index 0.71
SVM decision value 0.91
SVM RNA-class probability 0.879842
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1009570 110 - 22224390
UCUCCAUCUAUCUCUCUGCCUGAGCUAUGGCAAAUCGCUGCGAGAAAUACGCGAGCAGAUUUAUCUA-CAUGUUAGACGUGUGGGUGGGAGAGAAAAGGAGAAUCGGAGAA
(((((.(((.((((((((((........)))((((((((((((....).))).))).)))))(((((-((((.....))))))))).))))))).....)))...))))). ( -41.10)
>DroSec_CAF1 95037 103 - 1
UCUCCAUCUAUCUCUCUGCAUGAGCUAUGGCAAAUCGCUGCGAAAAAUACGCGAGCAGAUUUAUCUA-CAUGUUAGAUGGGUGGGCGGGAG--AAAAGGAGAAUCG-----
(((((.(((((((.((((((((.((....))(((((((((((.......))).))).))))).....-)))).)))).)))))))..))))--)............----- ( -33.20)
>DroSim_CAF1 72230 108 - 1
UCUCCAUCUAUCUCUCUGCAUGAGCUAUGGCAAAUCGCUGCGAAAAAUACGCGAGCAGAUUUAUCUA-CAUGUUAGAUGGGUGGGCGGGAG--AAAAGGAGAAUCGGAGAA
(((((.(((((((.((((((((.((....))(((((((((((.......))).))).))))).....-)))).)))).)))))))..))))--)................. ( -33.20)
>DroEre_CAF1 106331 104 - 1
UCUCCAUCUAUCUCUCUGCAUGAGCUAUGGCAAAUCGCUGCGAGAAAUACGCGAGCAGAUUUAUCUAACAUGUCCA-GGGGUG----GGAG--AAACGGAGAAAUGGAGAA
(((((((((((((((..(((((.((....))((((((((((((....).))).))).)))))......)))))..)-))))))----)...--..........))))))). ( -33.61)
>consensus
UCUCCAUCUAUCUCUCUGCAUGAGCUAUGGCAAAUCGCUGCGAAAAAUACGCGAGCAGAUUUAUCUA_CAUGUUAGAUGGGUGGGCGGGAG__AAAAGGAGAAUCGGAGAA
.((((..((((((.((((((((.((....))(((((((((((.......))).))).)))))......)))).)))).))))))...)))).................... (-25.01 = -26.32 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:38 2006