Locus 4461

Sequence ID 2R_DroMel_CAF1
Location 14,669,693 – 14,669,800
Length 107
Max. P 0.612670
window7131

overview

Window 1

Location 14,669,693 – 14,669,800
Length 107
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 87.06
Mean single sequence MFE -36.40
Consensus MFE -26.60
Energy contribution -27.85
Covariance contribution 1.25
Combinations/Pair 1.08
Mean z-score -1.57
Structure conservation index 0.73
SVM decision value 0.16
SVM RNA-class probability 0.612670
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14669693 107 + 20766785
CUCACGUCUUUUAAUUGUCAUGCCAUUUGGGAA-----UCGUCUGAAGC------GACUGUGAGUCAGGUUGUGGUCUCUCCAUCUACCUGGCCAUUAUGCUCGGUUCCCAG-CUCGGG
......................((..(((((((-----(((.....(((------(...(((.(((((((.((((.....))))..))))))))))..))))))))))))))-...)). ( -35.70)
>DroSim_CAF1 24370 105 + 1
CUCACGUCUUUUAAUUGUCAUGCCAUUUGGGAA-----UCGUCUGAAGC------GACUGUGAGUCAGGUUGUGGUC--UCCAUCUACCUGGCCAUUAUGCUCGGUUCCCAG-CUCNNN
..........................(((((((-----(((.....(((------(...(((.(((((((.((((..--.))))..))))))))))..))))))))))))))-...... ( -32.50)
>DroEre_CAF1 24700 108 + 1
CU--GGUCUUUUAAUUGUCAUGCCAUUUGGGGAUCGGAUCGUCUGCAGC------GACUGUGAGCCAGGCUGUGGUC--UCCAUCUACCUGGCCAUUAUGCUCGGUUCCCAG-CUCGGG
((--((((((..(((.(.....).)))..))))))))...........(------(((((.(((((..((.((((((--...........))))))...))..))))).)))-.))).. ( -35.00)
>DroYak_CAF1 24858 115 + 1
CU--AGUCUUUUAAUUGUCAUGCCAUUUGGGGAUCGGAUCGUCGGUAGCGUCGACGACUGUGAGCCAGGUUGUGGUC--UCCAUCUACCUGGCCAUUAUGCUCGGUUCCCAGUCUCGGG
..--..................((..(((((((((((.(((((((.....)))))))..(((.(((((((.((((..--.))))..)))))))))).....)))))))))))....)). ( -42.40)
>consensus
CU__CGUCUUUUAAUUGUCAUGCCAUUUGGGAA_____UCGUCUGAAGC______GACUGUGAGCCAGGUUGUGGUC__UCCAUCUACCUGGCCAUUAUGCUCGGUUCCCAG_CUCGGG
...........................(((((((((....(((............))).(((.(((((((.((((.....))))..))))))))))......)))))))))........ (-26.60 = -27.85 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:14 2006