Locus 5555

Sequence ID	X_DroMel_CAF1
Location	14,366,733 – 14,366,848
Length	115
Max. P	0.999645

overview

Window 5

Location	14,366,733 – 14,366,848
Length	115
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	89.06
Mean single sequence MFE	-29.51
Consensus MFE	-27.17
Energy contribution	-27.21
Covariance contribution	0.04
Combinations/Pair	1.11
Mean z-score	-2.58
Structure conservation index	0.92
SVM decision value	3.83
SVM RNA-class probability	0.999645
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14366733 115 + 22224390
GACGGGGGGGAGGGUCUCUGAAAGUGCGACAACCAUAAUUGGAUAAGUUUGCCACACUUUAAUUACACACUAAUGGCAAUCAGGCAUAAUUGUUGCCUGUUUUGUUGCACUUCUU
..((((((......)))))).((((((((((((((....)))......((((((...................)))))).((((((.......))))))..)))))))))))... ( -35.21)
>DroSec_CAF1 81066 100 + 1
GG---------------CUGAAAGUGCGACAACCAUAAUUGGAUAAGUUUGCCACCCUUUAAUUACACACUAAUGGCAAUCAGGCAUAAUUGUUGCGUGUUUUGUUGCACUUCUU
..---------------....((((((((((((((....)))......((((((...................)))))).((.(((.......))).))..)))))))))))... ( -25.71)
>DroSim_CAF1 75296 100 + 1
GG---------------CUGAAAGUGCGACAACCAUAAUUGGAUAAGUUUGCCACACUUUAAUUACACACUAAUGGCAAUCAGGCAUAAUUGUUGCCUGUUUUGUUGCACUUCUU
..---------------....((((((((((((((....)))......((((((...................)))))).((((((.......))))))..)))))))))))... ( -30.11)
>DroEre_CAF1 74518 100 + 1
UG---------------AUGAGAGUGCGACAGCCAUAAUUGGAUAAGUUUGCCACACUUUAAUUACACACUAAUGGCAAUCAGGCAUAAUUGUUGCCUGUUUUGUUGCACUUCUU
..---------------..((((((((((((((((....)))......((((((...................)))))).((((((.......))))))..))))))))).)))) ( -30.41)
>DroYak_CAF1 83598 97 + 1
AG---------------GUGGG---GCGACAACCAUAAUUGGAUAAGUUUGCCACACUUUAAUUACACACUAAUGGCAAUCAGGCAUAAUUGUUGCCUGUUUUGUUGCACUUCUA
.(---------------(.((.---((((((((((....)))......((((((...................)))))).((((((.......))))))..))))))).)).)). ( -26.11)
>consensus
GG_______________CUGAAAGUGCGACAACCAUAAUUGGAUAAGUUUGCCACACUUUAAUUACACACUAAUGGCAAUCAGGCAUAAUUGUUGCCUGUUUUGUUGCACUUCUU
...................(((.((((((((((((....)))......((((((...................)))))).((((((.......))))))..)))))))))))).. (-27.17 = -27.21 +   0.04)

alignment

secondary structure

dotplot

Window 6

Location	14,366,733 – 14,366,848
Length	115
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	89.06
Mean single sequence MFE	-27.22
Consensus MFE	-24.92
Energy contribution	-26.16
Covariance contribution	1.24
Combinations/Pair	1.03
Mean z-score	-2.45
Structure conservation index	0.92
SVM decision value	3.51
SVM RNA-class probability	0.999323
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14366733 115 - 22224390
AAGAAGUGCAACAAAACAGGCAACAAUUAUGCCUGAUUGCCAUUAGUGUGUAAUUAAAGUGUGGCAAACUUAUCCAAUUAUGGUUGUCGCACUUUCAGAGACCCUCCCCCCCGUC
..(((((((.((((..((((((.......)))))).(((((((((((.....))))....)))))))......(((....))))))).))))))).................... ( -29.60)
>DroSec_CAF1 81066 100 - 1
AAGAAGUGCAACAAAACACGCAACAAUUAUGCCUGAUUGCCAUUAGUGUGUAAUUAAAGGGUGGCAAACUUAUCCAAUUAUGGUUGUCGCACUUUCAG---------------CC
..(((((((.((((..(((.(...(((((((((((((....))))).))))))))...).)))..........(((....))))))).)))))))...---------------.. ( -25.10)
>DroSim_CAF1 75296 100 - 1
AAGAAGUGCAACAAAACAGGCAACAAUUAUGCCUGAUUGCCAUUAGUGUGUAAUUAAAGUGUGGCAAACUUAUCCAAUUAUGGUUGUCGCACUUUCAG---------------CC
..(((((((.((((..((((((.......)))))).(((((((((((.....))))....)))))))......(((....))))))).)))))))...---------------.. ( -29.60)
>DroEre_CAF1 74518 100 - 1
AAGAAGUGCAACAAAACAGGCAACAAUUAUGCCUGAUUGCCAUUAGUGUGUAAUUAAAGUGUGGCAAACUUAUCCAAUUAUGGCUGUCGCACUCUCAU---------------CA
..(((((((.(((...((((((.......)))))).(((((((((((.....))))....)))))))......(((....))).))).))))).))..---------------.. ( -27.70)
>DroYak_CAF1 83598 97 - 1
UAGAAGUGCAACAAAACAGGCAACAAUUAUGCCUGAUUGCCAUUAGUGUGUAAUUAAAGUGUGGCAAACUUAUCCAAUUAUGGUUGUCGC---CCCAC---------------CU
.....(((((((....((((((.......)))))).(((((((((((.....))))....)))))))...............)))).)))---.....---------------.. ( -24.10)
>consensus
AAGAAGUGCAACAAAACAGGCAACAAUUAUGCCUGAUUGCCAUUAGUGUGUAAUUAAAGUGUGGCAAACUUAUCCAAUUAUGGUUGUCGCACUUUCAG_______________CC
..(((((((.((((..((((((.......)))))).(((((((((((.....))))....)))))))......(((....))))))).))))))).................... (-24.92 = -26.16 +   1.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:49 2006