Locus 4059

Sequence ID 3R_DroMel_CAF1
Location 11,060,458 – 11,060,563
Length 105
Max. P 0.725616
window6507

overview

Window 7

Location 11,060,458 – 11,060,563
Length 105
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 79.32
Mean single sequence MFE -22.56
Consensus MFE -13.69
Energy contribution -14.72
Covariance contribution 1.03
Combinations/Pair 1.25
Mean z-score -1.76
Structure conservation index 0.61
SVM decision value 0.41
SVM RNA-class probability 0.725616
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11060458 105 + 27905053
CUUGGCAAUUUGUUGGUUGCCCAUCUUCAGAUUGAUUUCGGCAUCUUCCAGCAGAACGCUAAUCUAAAAUAAUA--------UGUAGUCACUAAUAUAUGCAGAAUGAAA-AUA
.(((((..((((((((.((((.(((........)))...))))....))))))))..)))))((.......(((--------(((........)))))).......))..-... ( -22.44)
>DroPse_CAF1 4596 109 + 1
CUUGGCUAUCUGAUGAUUACCCAUUUUCACAUUCACAUCGGCAUCUUCCAGCAGCACGCAGAUCUGUAAUGGCAAUAAUCAAUCCAAUUAUCAGCCUUUUUAGCAACG-----A
....((((.(((((((((...........((((((.(((((......)).((.....)).))).)).))))..............)))))))))......))))....-----. ( -16.71)
>DroSec_CAF1 4111 105 + 1
CUUAGCAAUUUGUUGGUUGCCCAUCUUCAGAUUGAUUUCGGCAUCUUCCAGCAGAACGCUAAUCUAAAAUAAUA--------UGAUAUCACUACUAAAUGUAGAAUGGAC-AUA
.(((((..((((((((.((((.(((........)))...))))....))))))))..)))))((((........--------((....))((((.....))))..)))).-... ( -25.00)
>DroSim_CAF1 4118 105 + 1
CUUAGCAAUUUGUUGGUUGCCCAUCUUCAGAUUGAUUUCGGCAUCUUCCAACAGAACGCUAAUCUAAAAUAAUA--------UGUAAUCACUACUAAAUGUAGAAUGGAC-AUA
.(((((..((((((((.((((.(((........)))...))))....))))))))..)))))..........((--------(((.....((((.....)))).....))-))) ( -27.10)
>DroEre_CAF1 4131 106 + 1
UUUAGCAAUUUGUUGGUUGCCCAUCUUCAGAUUGAUUUCGGCAUCUUCCAGCAGAACGCUUAUCUAAAAUAAUA--------UGCAAUUACUAACAUAUGUAGAAUUGAUUGUA
...(((..((((((((.((((.(((........)))...))))....))))))))..)))..............--------(((((((((((.(....))))...)))))))) ( -22.10)
>DroYak_CAF1 4150 105 + 1
UUUGGCAAUUUGUUGAUUGCCCAUCUUCAGAUUGAUUUCGGCAUCUUCCAGUAGAACGCUUAUCUAUAAUAGUA--------UGCAAUUAAUCACAUAUGUAGAAUGGAU-AUA
...(((((((....)))))))(((((.((...(((((...((((((....(((((.......)))))...)).)--------)))....)))))....)).)).)))...-... ( -22.00)
>consensus
CUUAGCAAUUUGUUGGUUGCCCAUCUUCAGAUUGAUUUCGGCAUCUUCCAGCAGAACGCUAAUCUAAAAUAAUA________UGCAAUCACUAACAUAUGUAGAAUGGAC_AUA
.(((((..((((((((.((((.(((........)))...))))....))))))))..))))).................................................... (-13.69 = -14.72 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:09 2006