Locus 4252

Sequence ID 2R_DroMel_CAF1
Location 14,038,768 – 14,038,858
Length 90
Max. P 0.706047
window6828 window6829

overview

Window 8

Location 14,038,768 – 14,038,858
Length 90
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 82.39
Mean single sequence MFE -15.76
Consensus MFE -8.19
Energy contribution -8.12
Covariance contribution -0.06
Combinations/Pair 1.14
Mean z-score -2.56
Structure conservation index 0.52
SVM decision value 0.17
SVM RNA-class probability 0.619093
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14038768 90 + 20766785
--GAAAAUCCGCCACUGAAUACAUGAACACAUGUAAUGUAAAUAAACUUUACAUCUACAGUAUAGUUACAGUGUACUUAAGUUUCUCUGAAC
--((((......(((((..((((((....)))))).........((((.(((.......))).)))).)))))........))))....... ( -15.64)
>DroSec_CAF1 9065 82 + 1
-----AAUCCGCCACUGAA-ACAU----ACAUGUAAUGUAAAUCAACUUUACAUCUACCGUAUAGUUACAGUGUACCUAAGUUUCACUGAAC
-----.......(((((.(-((((----((..((((((((((.....))))))).))).)))).))).)))))................... ( -15.90)
>DroSim_CAF1 4713 76 + 1
-----AAUCCGCCACUGAA-ACAU----ACAUGUAAUGUAAAUCAACUUUACAUCUACAGUAUAGUUACAGUGUACCUAAGUUUUA------
-----.......(((((.(-((((----((.(((((((((((.....))))))).)))))))).))).))))).............------ ( -18.50)
>DroEre_CAF1 6007 87 + 1
UAAAAAAUCCGCCACCGAA-ACAU----ACACGUAAUGUAAAUGAAUCUUACAUCUACAGUAUAGUUGCAGUGCAUCUGAGUUUCACUGAAC
................(((-((..----....(((((((((.......)))))).)))....(((.(((...))).))).)))))....... ( -13.00)
>consensus
_____AAUCCGCCACUGAA_ACAU____ACAUGUAAUGUAAAUCAACUUUACAUCUACAGUAUAGUUACAGUGUACCUAAGUUUCACUGAAC
................(((.((......((((((((((((((.....))))))).))).(((....))).))))......)))))....... ( -8.19 =  -8.12 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,038,768 – 14,038,858
Length 90
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 82.39
Mean single sequence MFE -19.62
Consensus MFE -12.85
Energy contribution -12.60
Covariance contribution -0.25
Combinations/Pair 1.15
Mean z-score -1.84
Structure conservation index 0.65
SVM decision value 0.36
SVM RNA-class probability 0.706047
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14038768 90 - 20766785
GUUCAGAGAAACUUAAGUACACUGUAACUAUACUGUAGAUGUAAAGUUUAUUUACAUUACAUGUGUUCAUGUAUUCAGUGGCGGAUUUUC--
.....(((((.((...((.(((((..((.(((((((.((((((((.....))))))))))).))))....))...))))))))).)))))-- ( -18.40)
>DroSec_CAF1 9065 82 - 1
GUUCAGUGAAACUUAGGUACACUGUAACUAUACGGUAGAUGUAAAGUUGAUUUACAUUACAUGU----AUGU-UUCAGUGGCGGAUU-----
((.((.((((((.((.((..((((((....)))))).((((((((.....))))))))..)).)----).))-)))).)))).....----- ( -21.00)
>DroSim_CAF1 4713 76 - 1
------UAAAACUUAGGUACACUGUAACUAUACUGUAGAUGUAAAGUUGAUUUACAUUACAUGU----AUGU-UUCAGUGGCGGAUU-----
------..........((.(((((.(((.(((((((.((((((((.....))))))))))).))----))))-).))))))).....----- ( -20.40)
>DroEre_CAF1 6007 87 - 1
GUUCAGUGAAACUCAGAUGCACUGCAACUAUACUGUAGAUGUAAGAUUCAUUUACAUUACGUGU----AUGU-UUCGGUGGCGGAUUUUUUA
((.((.((((((....((((((((((.......))))((((((((.....))))))))..))))----))))-)))).)))).......... ( -18.70)
>consensus
GUUCAGUGAAACUUAGGUACACUGUAACUAUACUGUAGAUGUAAAGUUGAUUUACAUUACAUGU____AUGU_UUCAGUGGCGGAUU_____
...................(((((..((...(((((.((((((((.....))))))))))).))......))...)))))............ (-12.85 = -12.60 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:23 2006