Locus 155

Sequence ID	2R_DroMel_CAF1
Location	1,420,180 – 1,420,332
Length	152
Max. P	0.891211

overview

Window 2

Location	1,420,180 – 1,420,292
Length	112
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	87.68
Mean single sequence MFE	-30.02
Consensus MFE	-25.72
Energy contribution	-25.84
Covariance contribution	0.12
Combinations/Pair	1.04
Mean z-score	-1.89
Structure conservation index	0.86
SVM decision value	0.97
SVM RNA-class probability	0.891211
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1420180 112 - 20766785
UUAGCUUCCACUAGAGUCUUUCAGUCGGACUGGCAGAAAUUCUAAUUAAAUGCUGCUUACUGGAAGCUGAUUAAGAAAUUUGAAUAUUUAUGGGCUCCCCAAGA------CCCCCUCC--
((((((((((.((.(((((.......)))))(((((................))))))).)))))))))).....................(((.((.....))------.)))....-- ( -25.69)
>DroSec_CAF1 38629 118 - 1
UUAGCUUCCAUUAGAGUCUUUCAGUCGGACUGGCAGAAAUUCUAAUUAAAUGCUGCUUAGUGGAAGCUGAUUAAGAAAUUUGAAUAUUUAUGGGCUCCCCAAGAACUAGCCCCCCUCC--
(((((((((((((.(((((.......)))))(((((................)))))))))))))))))).....................(((((...........)))))......-- ( -31.59)
>DroSim_CAF1 43684 120 - 1
UUAGCUUCCAUUAGAGUCUUUCAGUCGGACUGGCAGAAAUUCUAAUUAAAUGCUGCUUAGUGGAAGCUGAUUAAGAAAUUUGAAUAUUUAUGGGCUCCCCAAGAACUAACCCCCCACCUC
(((((((((((((.(((((.......)))))(((((................))))))))))))))))))................(((.((((...)))).)))............... ( -29.09)
>DroYak_CAF1 37946 111 - 1
UUAGCUUCCAUUAGAGUCUUUCAGUCGGACUGGAAGGAAUUCUAGUUAAAUGCUGCUUAGUGGAAGCUGAUUAGGAAUUUUGAAUAUUUAUGUUCUCCGCAAGUCGGAACC---------
((((((((((((.(((.....((((..((((((((....))))))))....)))))))))))))))))))...((......(((((....)))))((((.....)))).))--------- ( -33.70)
>consensus
UUAGCUUCCAUUAGAGUCUUUCAGUCGGACUGGCAGAAAUUCUAAUUAAAUGCUGCUUAGUGGAAGCUGAUUAAGAAAUUUGAAUAUUUAUGGGCUCCCCAAGAACUAACCCCCCUCC__
(((((((((((((.(((((.......)))))(((((................))))))))))))))))))....................(((.....)))................... (-25.72 = -25.84 +   0.12)

alignment

secondary structure

dotplot

Window 3

Location	1,420,212 – 1,420,332
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.25
Mean single sequence MFE	-35.63
Consensus MFE	-24.55
Energy contribution	-28.35
Covariance contribution	3.80
Combinations/Pair	1.00
Mean z-score	-2.25
Structure conservation index	0.69
SVM decision value	0.24
SVM RNA-class probability	0.650172
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1420212 120 - 20766785
AGAGUUAGAGCGCAUCAGACUGCGGAGCAGACUAAGAUGGUUAGCUUCCACUAGAGUCUUUCAGUCGGACUGGCAGAAAUUCUAAUUAAAUGCUGCUUACUGGAAGCUGAUUAAGAAAUU
..((((.(..((((......))))...).))))....(((((((((((((.((.(((((.......)))))(((((................))))))).)))))))))))))....... ( -31.69)
>DroSec_CAF1 38667 120 - 1
AGAGUUGGAGCGCAUCAGACUGCGGAGGUGUCUAAGAUGGUUAGCUUCCAUUAGAGUCUUUCAGUCGGACUGGCAGAAAUUCUAAUUAAAUGCUGCUUAGUGGAAGCUGAUUAAGAAAUU
....(((((.(((.((........)).))))))))..((((((((((((((((.(((((.......)))))(((((................)))))))))))))))))))))....... ( -34.99)
>DroSim_CAF1 43724 120 - 1
AGAGUUAGAGCGCAUCAGACUGCGGAGCUGUCUAAGAUGGUUAGCUUCCAUUAGAGUCUUUCAGUCGGACUGGCAGAAAUUCUAAUUAAAUGCUGCUUAGUGGAAGCUGAUUAAGAAAUU
..((.(((..((((......))))...))).))....((((((((((((((((.(((((.......)))))(((((................)))))))))))))))))))))....... ( -34.99)
>DroEre_CAF1 37083 108 - 1
GGAGUUACAGCGCAGCAGACUGCGGAGCAGUCUAAGAAGGUUA------------GUCUUUGAGUCGGACUGGCAGAAAUUCUAAUUAAAUGCUGCUCAGUGGCAGCUGAUUAGGAAUUU
...(((((.(.((((((((((((...))))))).((((.((((------------((((.......)))))))).....))))........))))).).)))))................ ( -34.60)
>DroYak_CAF1 37977 120 - 1
AGAGUUAGAGCGCAUCAGACUGCAGAGCAGUCUAAGAUGGUUAGCUUCCAUUAGAGUCUUUCAGUCGGACUGGAAGGAAUUCUAGUUAAAUGCUGCUUAGUGGAAGCUGAUUAGGAAUUU
............(((((((((((...)))))))..))))(((((((((((((.(((.....((((..((((((((....))))))))....))))))))))))))))))))......... ( -41.90)
>consensus
AGAGUUAGAGCGCAUCAGACUGCGGAGCAGUCUAAGAUGGUUAGCUUCCAUUAGAGUCUUUCAGUCGGACUGGCAGAAAUUCUAAUUAAAUGCUGCUUAGUGGAAGCUGAUUAAGAAAUU
............(((((((((((...)))))))..))))((((((((((((((.(((((.......)))))(((((................)))))))))))))))))))......... (-24.55 = -28.35 +   3.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:18 2006