Locus 1200

Sequence ID 3R_DroMel_CAF1
Location 3,621,277 – 3,621,376
Length 99
Max. P 0.832364
window1965

overview

Window 5

Location 3,621,277 – 3,621,376
Length 99
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 76.29
Mean single sequence MFE -29.13
Consensus MFE -17.63
Energy contribution -18.22
Covariance contribution 0.58
Combinations/Pair 1.06
Mean z-score -1.68
Structure conservation index 0.61
SVM decision value 0.72
SVM RNA-class probability 0.832364
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3621277 99 - 27905053
ACCGGGCCUGAACUGCAGGGCCAACAGCAAAAGUGCUUGAUGUCCUCUCGGACUAGGGGCAUCUGUCGAAAAA-GAGUGUGCAUUUAUUAGUUCCUAGGA
.((((.((((.....)))).))........((((((..(((((((.((......)))))))))..((......-))....))))))...........)). ( -28.30)
>DroSec_CAF1 79041 98 - 1
ACCGGGCCUGAGCUGCAGGGCCAACAGCAAAAGUGCUUGAUGUCCUCUCGGACCAGAGGCAUCUGUGAAAAAG-CAAUGUAUUUGUAUUAGUG-CUAAGA
...((.((((.....)))).))...((((..(((((..((((.(((((......)))))))))(((......)-))........)))))..))-)).... ( -30.70)
>DroSim_CAF1 72437 98 - 1
ACCGGGCCUGAACUGCAGGGCCAACAGCAAAAGUGCUUGAUGUCCUCUCGGACCAGAGGCAUCUGCGAAAAAG-CAAUGUAUUUGUAUUAGUG-CUAAGA
...((.((((.....)))).))...((((..(((((..((((.(((((......)))))))))(((......)-))........)))))..))-)).... ( -33.00)
>DroEre_CAF1 78377 93 - 1
ACCGGUCCUGAGCUGCAGGGCCAACAGCAGAAGUGCUUGAUGUCCUCUCGAACUAGGGGAAUCUGUCCAAAAG-GAUUGUACAUUUGUUAAUA-U-----
...(((((((.....)))))))...((((((.((((..(((.((((((......))))))))).((((....)-))).)))).))))))....-.----- ( -31.90)
>DroYak_CAF1 96476 95 - 1
ACCGGUCCUGACCUACAGGGCCAACAGCAGAAGUGCUUGAUGUCCUCGCGAACUAGAGGCAUCUGUACAAAAG-AAUUGUACAUUGAUUAUUG-CAU---
...(((((((.....)))))))....((((.(((....((((.((((........))))))))(((((((...-..)))))))...))).)))-)..--- ( -33.10)
>DroPer_CAF1 21546 92 - 1
ACCGGACCGGAGGUGCAGGGCCAACAGCAGAAAUACUUGACAUCCUCACGUACGAGGGGAAUCUGCAAAGAACAGAACGCAUUAGUA--G------AUGA
.((.(..((((((((((((((.....))(....).)))).)).)))).))..)..))...((((((..................)))--)------)).. ( -17.77)
>consensus
ACCGGGCCUGAGCUGCAGGGCCAACAGCAAAAGUGCUUGAUGUCCUCUCGGACUAGAGGCAUCUGUAAAAAAG_GAAUGUACAUGUAUUAGUG_CUA_GA
...((.((((.....)))).))...((((....)))).((((.((((........))))))))..................................... (-17.63 = -18.22 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:28 2006