Locus 5290

Sequence ID 2R_DroMel_CAF1
Location 17,180,007 – 17,180,104
Length 97
Max. P 0.528328
window8459

overview

Window 9

Location 17,180,007 – 17,180,104
Length 97
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 81.82
Mean single sequence MFE -28.95
Consensus MFE -18.27
Energy contribution -18.55
Covariance contribution 0.28
Combinations/Pair 1.20
Mean z-score -1.65
Structure conservation index 0.63
SVM decision value -0.01
SVM RNA-class probability 0.528328
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17180007 97 - 20766785
AGCCGAGCUC-GGUA-AUAAAGGUCACAUUUUGUAGGGCAC---AGUCUGGGAUCCUACGGUCCCGAUACUCUGACCUCUUUACCGGGCUGCUAAUAAUGUA
(((..(((((-((((-(...(((((((.....))((((...---.(((.((((((....))))))))).)))))))))..)))))))))))))......... ( -36.30)
>DroSec_CAF1 4826 96 - 1
ACCCAAGCAC-GGUA-AUAAAGGUCACAUUUUGUAGGGCAC---AGUCUGGGAUCCUGCGGUC-CGAUACUCUGACCUCUUUAACGGGCUGCUAAUAAUGUA
.((((..(..-.((.-((((((......))))))...))..---.)..)))).....((((((-((..................)))))))).......... ( -22.17)
>DroSim_CAF1 4819 97 - 1
ACCCAAGCAC-GGUA-AUAAAGGUCACAUUUUGUAGGGCAC---AGUCUGGGAUCCUGCGGUCCCGAUACUCUGACCUCUUUACCGGGCUGCUAAUAAUGUA
.....(((.(-((((-(...(((((((.....))((((...---.(((.((((((....))))))))).)))))))))..)))))).)))............ ( -30.40)
>DroEre_CAF1 4872 97 - 1
ACCGAAACAC-GGUA-AUAAAGGUCACAUUUUGUAGGGCAC---AGUCUGGGAUCCUGUGGUCCCGAUACUCUGACCUCUUUACCGGGCCACUAAUAAUAUA
.........(-((((-(...(((((((.....))((((...---.(((.((((((....))))))))).)))))))))..))))))................ ( -26.50)
>DroYak_CAF1 4643 97 - 1
ACCCAAACAC-GGUA-AUAAAGGUCACAUUUUGUAGGGCAC---AGUCUGGGAUCCUGUGGUCCCGAUACUCUGACCUCUUUACCGGGCAACUAAUAAUGUA
......((((-((((-(...(((((((.....))((((...---.(((.((((((....))))))))).)))))))))..))))))(....)......))). ( -27.50)
>DroAna_CAF1 5700 92 - 1
ACCUCAAUACAGGUAAGUAGAGGUCGCACUUAGUAGGCCACUUCUGCCUGGGAUCCAGUGGGUCUAAUUUGAUGACCUGUUUGCGG-CC---------CGUA
.((.(((.((((((..((((((((.((.((....)))).))))))))...((((((...)))))).........))))))))).))-..---------.... ( -30.80)
>consensus
ACCCAAACAC_GGUA_AUAAAGGUCACAUUUUGUAGGGCAC___AGUCUGGGAUCCUGCGGUCCCGAUACUCUGACCUCUUUACCGGGCUGCUAAUAAUGUA
...........((((.....((((((.........((((......))))((((((....)))))).......))))))...))))................. (-18.27 = -18.55 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:22 2006