Locus 2770

Sequence ID 2R_DroMel_CAF1
Location 9,688,458 – 9,688,557
Length 99
Max. P 0.832308
window4587

overview

Window 7

Location 9,688,458 – 9,688,557
Length 99
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 81.62
Mean single sequence MFE -24.37
Consensus MFE -19.28
Energy contribution -19.42
Covariance contribution 0.14
Combinations/Pair 1.10
Mean z-score -1.87
Structure conservation index 0.79
SVM decision value 0.72
SVM RNA-class probability 0.832308
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9688458 99 + 20766785
UCUUCU-------UUUAAAUGCUUC----AACUCCACAUGUAGUGUGCUUUCCUCAUCUGGUGCAUGCUGCCCACGGAACAGAAUGGUUCUACCAUCAUCUACAACAAGC
......-------.......((((.----...(((....(((((((((...((......)).)))))))))....)))..(((((((.....))))..))).....)))) ( -22.80)
>DroSec_CAF1 4853 99 + 1
ACUUCU-------UAUAAAUGCUUU----AACUCCACAUGCAGUGUGCUUUCCUCAUCUGGUGCAUGCUGCCCACGGAACAGAAUGGUUCUACCAUCAUCUACCGCAAGC
......-------......(((...----...(((....(((((((((...((......)).)))))))))....)))..(((((((.....))))..)))...)))... ( -26.10)
>DroSim_CAF1 3004 99 + 1
ACUUCU-------UAUAAAUUCUUU----UACUCCACAUGUAGUGUGCUUUCCUCAUCUGGUGCAUGCUGCCCACGGAACAGAAUGGUUCUACCAUCAUCUACCGCAAGC
......-------............----...(((....(((((((((...((......)).)))))))))....)))..(((((((.....))))..)))..(....). ( -21.40)
>DroEre_CAF1 2950 98 + 1
UUUUAU-------UUCAAGUGGUAU-----ACUCCACCCGUAGUGUGCUUUCCUCAUCUGGUGCAUGCUGCCCACGGAACAGAAUGGUUCGACCAUCAUCUACAGAAAGC
.....(-------(((..((((...-----...))))(((((((((((...((......)).)))))))....))))...(((((((.....))))..)))...)))).. ( -24.90)
>DroYak_CAF1 2958 103 + 1
UAUUAU-------UUUAAAUGGUUUGCUUUGCUCCACAUGUAGUGUGCCUUCCUCAUCUGGUGCAUGCUGCCCACGGAACAGAAUGGUUCUACCAUCAUCUACCGCAAGU
......-------.........(((((((((.(((....(((((((((...((......)).)))))))))....))).))))((((.....))))........))))). ( -26.20)
>DroPer_CAF1 1808 105 + 1
UUGUAUUGAAGAU-UGAACUAAUUU----CUCGUCUGUUUCAGUGUGCUUUCCUCAUCUGGUGCAUGCUGCCCACGGAGCAGAACGGCUCCACCAUUAUCUACCACAAAC
((((.....((((-.(((.....))----)..))))((..((((((((...((......)).))))))))...))(((((......))))).............)))).. ( -24.80)
>consensus
UCUUAU_______UUUAAAUGCUUU____AACUCCACAUGUAGUGUGCUUUCCUCAUCUGGUGCAUGCUGCCCACGGAACAGAAUGGUUCUACCAUCAUCUACCGCAAGC
................................(((....(((((((((...((......)).)))))))))....)))..(((((((.....))))..)))......... (-19.28 = -19.42 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:03 2006