Locus 2094

Sequence ID	2L_DroMel_CAF1
Location	5,642,103 – 5,642,209
Length	106
Max. P	0.986287

overview

Window 3

Location	5,642,103 – 5,642,209
Length	106
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	77.91
Mean single sequence MFE	-33.30
Consensus MFE	-24.50
Energy contribution	-24.14
Covariance contribution	-0.36
Combinations/Pair	1.19
Mean z-score	-4.67
Structure conservation index	0.74
SVM decision value	1.73
SVM RNA-class probability	0.974294
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5642103 106 + 22407834
-A-UAACAUAUUGGUCCAACUUGCCUUAGAAUAGGGGAGCUUAACUUAUGUUUUUGAUGUUUAAGUUAAAAGCCUCUGUUCUAAGACAAUUUGAUGAUCAAAACAG---CC
-.-.......(((((((((.(((.(((((((((((((...((((((((.............))))))))...))))))))))))).))).)))..)))))).....---.. ( -33.42)
>DroSec_CAF1 86075 108 + 1
AAUCAAAAUCUUGGUCCAACUUGCCUUAGAAUAGGGGAGCUUAACUUGUGUUUUUAAUGUUUAAGUUAAAAGCCACUGUUCUAAGACAAUUUGAUGAUCAAAACCA---CC
..........(((((((((.(((.((((((((((.((...((((((((.............))))))))...)).)))))))))).))).)))..)))))).....---.. ( -28.92)
>DroSim_CAF1 86501 111 + 1
AAUCAAAAUCUUGGUCCAACUUGCCUUAGAAUAGGGGAGCUUAACUUGUGUUUUUAAUGUUUAAGUUAAAAGCCACUGUUCUAAGACAAUUUGAUGAUCAAAACUUCAACU
..........(((((((((.(((.((((((((((.((...((((((((.............))))))))...)).)))))))))).))).)))..)))))).......... ( -28.92)
>DroEre_CAF1 88376 107 + 1
AAU-AACGUUUUGGUCCCACUUGUCUUAGAAUAGGGGAGCUUAACUUGUGUGUGUUAUGCUUAAGUUAAGAGCCUUUAUUCUAAGUCAAUUCGACUGCCAACUCUG---CG
...-..(((.(((((.....(((.(((((((((((((..(((((((((.((((...)))).)))))))))..))))))))))))).))).......)))))....)---)) ( -36.40)
>DroWil_CAF1 126165 102 + 1
GAACAA------GGUCAAACUUGUCUUAGAAUAGGGGAGCUUAACUUAUAUUGUUUUGCUUAAAGUUAAGAGCCUCAAUUCUAAGAUAAUGCGACUAUCACCGCAG---CA
...(((------(......))))(((((((((.((((..((((((((...............))))))))..)))).)))))))))...((((........)))).---.. ( -32.16)
>DroYak_CAF1 87794 107 + 1
AAU-GAAAUCUUGGUCCCACUUGUCUUAGAAUAGGGGAGCUUAACUUAUGUAUAUCAUGUAUAAGUUAAGAACCUUUAUUCUAAGACAAUUCGACUACAAAAUCAA---CU
..(-((.....(((((....(((((((((((((((((..((((((((((((((...))))))))))))))..)))))))))))))))))...))))).....))).---.. ( -40.00)
>consensus
AAUCAAAAUCUUGGUCCAACUUGCCUUAGAAUAGGGGAGCUUAACUUAUGUUUUUAAUGUUUAAGUUAAAAGCCUCUAUUCUAAGACAAUUCGACGAUCAAAACAG___CC
.............(((....(((.(((((((((((((...((((((((.............))))))))...))))))))))))).)))...)))................ (-24.50 = -24.14 +  -0.36)

alignment

secondary structure

dotplot

Window 4

Location	5,642,103 – 5,642,209
Length	106
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	77.91
Mean single sequence MFE	-28.18
Consensus MFE	-20.08
Energy contribution	-21.08
Covariance contribution	1.00
Combinations/Pair	1.11
Mean z-score	-3.23
Structure conservation index	0.71
SVM decision value	2.04
SVM RNA-class probability	0.986287
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5642103 106 - 22407834
GG---CUGUUUUGAUCAUCAAAUUGUCUUAGAACAGAGGCUUUUAACUUAAACAUCAAAAACAUAAGUUAAGCUCCCCUAUUCUAAGGCAAGUUGGACCAAUAUGUUA-U-
((---(....(((.((..(((.(((((((((((.((.((..(((((((((.............)))))))))..)).)).))))))))))).))))).)))...))).-.- ( -26.22)
>DroSec_CAF1 86075 108 - 1
GG---UGGUUUUGAUCAUCAAAUUGUCUUAGAACAGUGGCUUUUAACUUAAACAUUAAAAACACAAGUUAAGCUCCCCUAUUCUAAGGCAAGUUGGACCAAGAUUUUGAUU
..---.(((((((.((..(((.(((((((((((.((.((..((((((((...............))))))))..)).)).))))))))))).))))).)))))))...... ( -26.96)
>DroSim_CAF1 86501 111 - 1
AGUUGAAGUUUUGAUCAUCAAAUUGUCUUAGAACAGUGGCUUUUAACUUAAACAUUAAAAACACAAGUUAAGCUCCCCUAUUCUAAGGCAAGUUGGACCAAGAUUUUGAUU
(((..((((((((.((..(((.(((((((((((.((.((..((((((((...............))))))))..)).)).))))))))))).))))).))))))))..))) ( -32.56)
>DroEre_CAF1 88376 107 - 1
CG---CAGAGUUGGCAGUCGAAUUGACUUAGAAUAAAGGCUCUUAACUUAAGCAUAACACACACAAGUUAAGCUCCCCUAUUCUAAGACAAGUGGGACCAAAACGUU-AUU
..---..(..((((...((.(.(((.(((((((((..((..((((((((...............))))))))..))..))))))))).))).).)).))))..)...-... ( -24.26)
>DroWil_CAF1 126165 102 - 1
UG---CUGCGGUGAUAGUCGCAUUAUCUUAGAAUUGAGGCUCUUAACUUUAAGCAAAACAAUAUAAGUUAAGCUCCCCUAUUCUAAGACAAGUUUGACC------UUGUUC
..---.(((((......)))))...(((((((((.(.((..((((((((...............))))))))..)).).)))))))))((((......)------)))... ( -24.96)
>DroYak_CAF1 87794 107 - 1
AG---UUGAUUUUGUAGUCGAAUUGUCUUAGAAUAAAGGUUCUUAACUUAUACAUGAUAUACAUAAGUUAAGCUCCCCUAUUCUAAGACAAGUGGGACCAAGAUUUC-AUU
.(---..(((((((..(((...(((((((((((((..((..((((((((((...........))))))))))..))..)))))))))))))....)))))))))).)-... ( -34.10)
>consensus
AG___CUGUUUUGAUAAUCAAAUUGUCUUAGAACAGAGGCUCUUAACUUAAACAUAAAAAACACAAGUUAAGCUCCCCUAUUCUAAGACAAGUUGGACCAAGAUUUUGAUU
.................((((.(((((((((((.((.((..((((((((...............))))))))..)).)).))))))))))).))))............... (-20.08 = -21.08 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:27 2006