Locus 2082

Sequence ID X_DroMel_CAF1
Location 5,676,636 – 5,676,748
Length 112
Max. P 0.998414
window3384 window3385

overview

Window 4

Location 5,676,636 – 5,676,748
Length 112
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 80.61
Mean single sequence MFE -30.03
Consensus MFE -23.07
Energy contribution -23.73
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.51
Structure conservation index 0.77
SVM decision value 1.96
SVM RNA-class probability 0.984125
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5676636 112 + 22224390
AAUCAACAAUCGGUGGCAAGACAACAUCUGCUGCAGUUGCAGUUGCACUUGCACUUGCUUGAGUGCUGAUGUUGCCAAUAUUUGUUGUAAAGCUGGGUAGAAAAUAUAUUGG
...((((((....(((((.....(((((.(((((....))))).((((((((....))..)))))).))))))))))....))))))......................... ( -32.00)
>DroSec_CAF1 15589 86 + 1
AAUCAACAAUCGGUGGCAACACAACAUCUGCAGCAGUUGCAGUUGCACU------UGCAUGAGUGCUGAUGUUGCCAAUAUUUGUAGUAAAG--------------------
.....((((....((((((((((....((((((...))))))..(((((------(....)))))))).))))))))....)))).......-------------------- ( -28.40)
>DroSim_CAF1 16166 106 + 1
AAUCAACAAUCGGUGGCAACACAACAUCUGCUGCAGUUGCAGUUGCACU------UGCUUGAGUGCUGAUGUUGCCAAUAUUUGUAGUAAAGUUGGAUAGAAAAUAUAAUAG
.....((((....((((((((((......(((((....))))).(((((------(....)))))))).))))))))....))))........................... ( -29.70)
>consensus
AAUCAACAAUCGGUGGCAACACAACAUCUGCUGCAGUUGCAGUUGCACU______UGCUUGAGUGCUGAUGUUGCCAAUAUUUGUAGUAAAG_UGG_UAGAAAAUAUA_U_G
.....((((....((((((((((......(((((....))))).(((((............))))))).))))))))....))))........................... (-23.07 = -23.73 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 5,676,636 – 5,676,748
Length 112
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 80.61
Mean single sequence MFE -28.73
Consensus MFE -24.47
Energy contribution -24.80
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.53
Structure conservation index 0.85
SVM decision value 3.09
SVM RNA-class probability 0.998414
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5676636 112 - 22224390
CCAAUAUAUUUUCUACCCAGCUUUACAACAAAUAUUGGCAACAUCAGCACUCAAGCAAGUGCAAGUGCAACUGCAACUGCAGCAGAUGUUGUCUUGCCACCGAUUGUUGAUU
.........................((((((....((((((((((.(((((...((....)).)))))..((((....))))..))))).....)))))....))))))... ( -29.70)
>DroSec_CAF1 15589 86 - 1
--------------------CUUUACUACAAAUAUUGGCAACAUCAGCACUCAUGCA------AGUGCAACUGCAACUGCUGCAGAUGUUGUGUUGCCACCGAUUGUUGAUU
--------------------.....(.((((....((((((((.(((((((((.(((------..(((....)))..))))).)).)))))))))))))....)))).)... ( -29.10)
>DroSim_CAF1 16166 106 - 1
CUAUUAUAUUUUCUAUCCAACUUUACUACAAAUAUUGGCAACAUCAGCACUCAAGCA------AGUGCAACUGCAACUGCAGCAGAUGUUGUGUUGCCACCGAUUGUUGAUU
.........................(.((((....((((((((.(((((((...(((------..(((....)))..)))...)).)))))))))))))....)))).)... ( -27.40)
>consensus
C_A_UAUAUUUUCUA_CCA_CUUUACUACAAAUAUUGGCAACAUCAGCACUCAAGCA______AGUGCAACUGCAACUGCAGCAGAUGUUGUGUUGCCACCGAUUGUUGAUU
.........................(.((((....((((((((.(((((.....(((........)))..((((.......)))).)))))))))))))....)))).)... (-24.47 = -24.80 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:48 2006