Locus 1627

Sequence ID 3R_DroMel_CAF1
Location 4,723,502 – 4,723,598
Length 96
Max. P 0.891589
window2679

overview

Window 9

Location 4,723,502 – 4,723,598
Length 96
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 72.78
Mean single sequence MFE -26.75
Consensus MFE -11.63
Energy contribution -12.83
Covariance contribution 1.20
Combinations/Pair 1.26
Mean z-score -2.08
Structure conservation index 0.43
SVM decision value 0.97
SVM RNA-class probability 0.891589
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4723502 96 + 27905053
AAUG-------------------UGGGAGA-AGUGAUUGUGGUCGAAAUCAUAUGGCCCAUUCAUUUGGAGUAAUGAAAACAAUUGAAAGAAAGCCAGCCAGCAUCUUAAUGGCAA
..((-------------------((((..(-.((((((........)))))).)..))).((((((......)))))).)))...............((((.........)))).. ( -19.80)
>DroSec_CAF1 67372 98 + 1
AAUGUUUUCGCUUCG------AGUGGGAGA-AGUGAUUGUUGCCGAAAUCAUAUGUCCCAUUCAAUUGGAGUAAUGAAAACAAUUGGAAGAAAGCCAGCCAG-----------CAA
..(((((((((((((------(((((((.(-.((((((........)))))).).))))))))....)))))...))))))).((((..(.....)..))))-----------... ( -29.80)
>DroSim_CAF1 70879 98 + 1
AAUGUUUUCGCUUCG------AGUGGGAGA-AGUGAUUGUGGUCGAAAUCAUAUGGCCCAUUCAAUUGGAGUAAUGAAAACAAUUGGAAGAAAGCCAGCCAG-----------CAA
..(((((((((((((------((((((..(-.((((((........)))))).)..)))))))....)))))...))))))).((((..(.....)..))))-----------... ( -26.90)
>DroEre_CAF1 71255 102 + 1
AAUGUUUUUCUUUUG------AGUGGGAGA-AGUGAUUGUGGUCGAAAUCAUAUGGCCCAUUCAACUGGAGUAAUGAAAACAAUU---AGAAAGCCAGC----AUCCUAAUGACAA
..((((......(((------((((((..(-.((((((........)))))).)..)))))))))((((..(..(((......))---)..)..)))).----........)))). ( -24.20)
>DroYak_CAF1 70833 102 + 1
AAUGUUUUCCUUUUG------AGUGGGAGA-AGUGAUUGUGGUCGAAAUCAUAUGGCCCAUUCAAUUGGAGUAAUGAAAACAAUU---AGAAAGCCAGC----AUCUUAAUGGCAA
..((((((((..(((------((((((..(-.((((((........)))))).)..)))))))))..))).......)))))...---.....((((..----.......)))).. ( -30.11)
>DroPer_CAF1 94510 114 + 1
AAUGUUUUUCUUACGAGGUACAGGGGAAGAAACUGAUUGUAAGGGAGAUCUUAUUACCCUUCCAAUUGGUCUAAUGAGAGCCAUUCA--CAGAGGCAGGAGAAAUGCAUGUGGGUA
....(((..(((((((....(((.........))).)))))))..)))((((((((.((........))..))))))))...(((((--((...(((.......))).))))))). ( -29.70)
>consensus
AAUGUUUUCCUUUCG______AGUGGGAGA_AGUGAUUGUGGUCGAAAUCAUAUGGCCCAUUCAAUUGGAGUAAUGAAAACAAUUG__AGAAAGCCAGCCAG_AUC_UAAUGGCAA
..(((((((............((((((.....((((((........))))))....)))))).............))))))).................................. (-11.63 = -12.83 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:11 2006