Locus 6323

Sequence ID 2R_DroMel_CAF1
Location 19,824,642 – 19,824,753
Length 111
Max. P 0.728005
window10104

overview

Window 4

Location 19,824,642 – 19,824,753
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.15
Mean single sequence MFE -34.08
Consensus MFE -21.84
Energy contribution -25.02
Covariance contribution 3.18
Combinations/Pair 1.06
Mean z-score -1.95
Structure conservation index 0.64
SVM decision value 0.42
SVM RNA-class probability 0.728005
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19824642 111 + 20766785
GUACGGGCAGUGCCGUUAUGGCACAUUUUCAUUAUUUUA------UAUUCCCAGGAAAGGCUGCGCUGGC---CGCCGGGCAAUCCGGCCCAGUUUUCUGGCUUUUCUGGCUUACAAAAC
(((..(((.(((((.....)))))...............------......((((((((.(...(((((.---.(((((.....)))))))))).....).))))))))))))))..... ( -38.90)
>DroSec_CAF1 66903 113 + 1
GUACGGGCAGUGCCGUUAUGGCACAUUUUCAUUAUUUUA------UAUUCCCAGGAAAGGCUGCGCCGGCUGCCGCCGAGCAAUCCGGCCCAGUU-UCUGGCUUUUCUGGCUUACAAAAC
(((.((.(((((((.....)))))...............------.....(((((((.(((((.((((((....)))).))....)))))...))-)))))......)).)))))..... ( -36.80)
>DroSim_CAF1 55024 112 + 1
GUACGGGCAGUGCCGUUAUGGCACAUUUUCAUUAUUUUA------UAUUCCCAGGAAAGGCUGCGCCGGCCG-CGCCGGGCAAUCCGGCCCAGUU-UCUGGCUUUUCUGGCUUACAAAAC
(((..(((.(((((.....)))))...............------......((((((((((.((....)).)-)(((((.....)))))((((..-.))))))))))))))))))..... ( -37.10)
>DroEre_CAF1 68436 101 + 1
GUACUGGCAGUGCCGUUAUGGCACAUUUCCAUUAUUUUA----UUUAUUCCCAGGAAAGGCUGCGUUAG------CCGAGCAAUCCGGCCCAGUUUUC---------UGGCUUACAAAAC
(((..(((.(((((.....)))))...............----........((((((((((((.(((.(------(...))))).)))))...)))))---------))))))))..... ( -26.50)
>DroYak_CAF1 64996 99 + 1
GUACUGGCAGUGCCGUUAUGGCACAUUUUCAUUAUUUUACGAGUAUAUUCCCAGGAAU---------------------AUACUCCGGCCCAGUUUUCUGGCUUUUCUGGCUUACAAAAC
.....(((.(((((.....)))))................((((((((((....))))---------------------))))))..)))..(((((..((((.....))))...))))) ( -31.10)
>consensus
GUACGGGCAGUGCCGUUAUGGCACAUUUUCAUUAUUUUA______UAUUCCCAGGAAAGGCUGCGCCGGC___CGCCGAGCAAUCCGGCCCAGUUUUCUGGCUUUUCUGGCUUACAAAAC
(((..(((.(((((.....)))))...........................((((((((..(((.(((((....)))))))).......((((....))))))))))))))))))..... (-21.84 = -25.02 +   3.18)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:16 2006