Locus 1421

Sequence ID 3L_DroMel_CAF1
Location 4,128,166 – 4,128,260
Length 94
Max. P 0.559592
window2209

overview

Window 9

Location 4,128,166 – 4,128,260
Length 94
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 71.77
Mean single sequence MFE -27.58
Consensus MFE -17.92
Energy contribution -17.48
Covariance contribution -0.44
Combinations/Pair 1.33
Mean z-score -1.03
Structure conservation index 0.65
SVM decision value 0.05
SVM RNA-class probability 0.559592
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4128166 94 + 23771897
ACCUGCGGCAUAAGUGGCGCCACUUCCAAUCGAGUUGUGGGUGGCAUGGAAGCACGGAAAGGUAAUG---AAGCUAAAU-----------AGAGUUGUUCA----UGUAUUA
((((((.((....)).))((((((..((((...))))..))))))..............)))).(((---(((((....-----------..)))..))))----)...... ( -25.40)
>DroSec_CAF1 4707 90 + 1
ACCUGCGGCAUUAGUGGCGCCACUUCCAAUCGAGUUGUGGGUGGCAUGGAAGCGCGGAAAGGUAAUG---AAGCUUAAA-----------AGAGUUGUUCA--------UUA
..(((((((.......))((((((..((((...))))..)))))).......))))).....(((((---((((((...-----------.))))..))))--------))) ( -27.80)
>DroSim_CAF1 4710 90 + 1
ACCUGCGGCAUUAGUGGCGCCACUUCCAAUCGAGUUGUGGGUGGCAUGGAAGCGCGGAAAGGUAAUG---AAGCUAAAA-----------AGAGUUGUUCA--------UUA
..(((((((.......))((((((..((((...))))..)))))).......))))).....(((((---(((((....-----------..)))..))))--------))) ( -26.80)
>DroEre_CAF1 4722 109 + 1
GCCUGCGGCAUUAGUGGUGCCACUUCCAAUCGAGUUGUGGGUGGUAUGGAAGCGCGGAAAGGUAAUG---AAGUGCCACAGACUUUGUGAAAAGCAGUUUAUUGAAAUGUUA
..(((((.(.....(.((((((((..((((...))))..)))))))).)..)))))).....(((((---((.((((((((...)))))....))).)))))))........ ( -30.90)
>DroYak_CAF1 4726 101 + 1
GCUUGCGGCAUUAGUGGUGCCACUUCCAAUAGAGUUGUGGGUGGUAUGGAAGCGCGGAAAGGUAAUG---AAGUGCAAC--------UGAAAAACAGUUCAUAGAAAUGUUC
.(((.(.((.....(.((((((((..((((...))))..)))))))).)....)).).)))......---..(((.(((--------((.....)))))))).......... ( -25.20)
>DroMoj_CAF1 7149 95 + 1
GGCUGUGGCAUAGGUGGCGCCACCACAAAUCGUGUCGUCGGCGGCUUGCCCGUUCGCAAAGGUGAGCAUCAAUCU--CA-----------UGAGC---UCAUACAC-UCAUA
(((...(((...(.(((((.(((........))).))))).).))).))).((((((....))))))........--.(-----------((((.---.......)-)))). ( -29.40)
>consensus
ACCUGCGGCAUUAGUGGCGCCACUUCCAAUCGAGUUGUGGGUGGCAUGGAAGCGCGGAAAGGUAAUG___AAGCUAAAA___________AGAGCUGUUCA______U_UUA
((((((.((....)).))((((((..((((...))))..))))))..............))))................................................. (-17.92 = -17.48 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:05 2006