Locus 1167

Sequence ID	2L_DroMel_CAF1
Location	3,200,154 – 3,200,371
Length	217
Max. P	0.963000

overview

Window 8

Location	3,200,154 – 3,200,274
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.42
Mean single sequence MFE	-36.95
Consensus MFE	-29.50
Energy contribution	-29.66
Covariance contribution	0.16
Combinations/Pair	1.16
Mean z-score	-2.21
Structure conservation index	0.80
SVM decision value	1.55
SVM RNA-class probability	0.963000
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3200154 120 - 22407834
GUUAUGCUGGCCAUAUGAGCCCGGCUAAUUAAAGCAAUGCGAUGGUGGAGUGCUGUUAACAUGACAAGCAAUUUGUUGCGCAGGAUAAUGUGGGGCAGUGUGGAAGCUGAGUUGCAAGAA
.....(((..((((((..((((.(((......)))..((((.(((..((.(((((((.....))).)))).))..)))))))..........)))).)))))).)))............. ( -36.10)
>DroSec_CAF1 36980 118 - 1
GUUAUGCUGGCCAUAUGAGGCCGGCUAAUUAAAGCAAUGCGAUGGCGGAGUGCUGUUAACAUGACAAGCAAUUUGUUGCGCAGGAUAAUGUG--GCAGUGUGGAAACUGAGUUGCAAGAA
((((.(((((((......)))))))))))....((((((((.(((((((.(((((((.....))).)))).))))))))))...........--.((((......)))).)))))..... ( -38.50)
>DroSim_CAF1 40080 118 - 1
GUUGUGCUGGCCAUAUGAGCCCGGCUAAUUAAAGCAAUGCGAUGACGGAGUGCUGUUAACAUGACAAGCAAUUUGUUGCGCAGGAUAAUGUG--GCAGGGUGGAAGUUGAGUUGCAAGAA
.((.((((.(((((((...((..(((......)))..((((.(((((((.(((((((.....))).)))).)))))))))))))...)))))--))..)))).))............... ( -34.50)
>DroEre_CAF1 38284 118 - 1
GUUAUGCUGGGCAUAUGAGCCCGGCUAAUUAAAGCAAUGCGCUGGCGGAGUGCUGUUAACAUGACAAGCAAUUUGUUGCGCAGGAUAAUGUG--GCCGGGUGAGCAGGGAGUUGCAAGAA
..(((((...)))))...(((((((((..........(((((.((((((.(((((((.....))).)))).)))))))))))........))--)))))))..((((....))))..... ( -41.37)
>DroYak_CAF1 36625 118 - 1
UUUAUGCUGGGCAUGUGAGCCCGGCUAAUUAAAGCAAUGCGAUGGCGGAGUGGUGUUAACAUGACAAGCAAUUUGUUGCGCAGGAUAAUGUG--GCAGGGUGAAAACAGAGUUGCAAGAA
.....(((((((......)))))))............((((.(((((((.((.((((.....))))..)).)))))))))))......((..--((...((....))...))..)).... ( -34.30)
>consensus
GUUAUGCUGGCCAUAUGAGCCCGGCUAAUUAAAGCAAUGCGAUGGCGGAGUGCUGUUAACAUGACAAGCAAUUUGUUGCGCAGGAUAAUGUG__GCAGGGUGGAAACUGAGUUGCAAGAA
.....(((((((......)))))))........((((((((.(((((((.(((((((.....))).)))).))))))))))..............(((........))).)))))..... (-29.50 = -29.66 +   0.16)

alignment

secondary structure

dotplot

Window 9

Location	3,200,274 – 3,200,371
Length	97
Sequences	4
Columns	110
Reading direction	forward
Mean pairwise identity	87.25
Mean single sequence MFE	-34.55
Consensus MFE	-25.06
Energy contribution	-27.00
Covariance contribution	1.94
Combinations/Pair	1.12
Mean z-score	-1.43
Structure conservation index	0.73
SVM decision value	-0.00
SVM RNA-class probability	0.532280
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3200274 97 + 22407834
ACCUAAAAGAAUUUAGAAGCGUGCCAUGUAAAUGGGAGCUCAUCUACUUGAUGGGUGGACGUGGGGCGGUGGCAAGGGAGUU----------UUAUCUAGGA---CCCUG
.((((..(((((((.......((((((((..(((...(((((((.....)))))))...)))...)).))))))...)))))----------))...)))).---..... ( -28.30)
>DroSec_CAF1 37098 107 + 1
ACCUAAAAGAAUUUAGAAGCGUGCCAUGUAAAUGGGAGCUCAUCUACUUGAUGGGUGGGCGUUGGACGGUGGCAAGGGAGCUUGCCCCCAGUUUAUCUAGGA---CCCUG
.((((............(((((.((((....))))..(((((((.....)))))))..)))))((((((.((((((....)))))).)).))))...)))).---..... ( -35.90)
>DroSim_CAF1 40198 107 + 1
ACCUAAAAGAAUUUAGAAGCGUGCCAUGUAAAUGGGAGCUCAUCUACUUGAUGGGUGGGCGUUGGACGGUGGCAAGGGAGCUUGCCCGCAGUUUAUCUAGGA---CCCUG
.((((............(((((.((((....))))..(((((((.....)))))))..)))))((((.((((((((....)))).)))).))))...)))).---..... ( -34.20)
>DroYak_CAF1 36743 110 + 1
ACCUACAAGAAUUUAGAAGAGUGCCAUAUAAAUGGGAGCUCAUCUGCUUGAUGGGUGGGCGUUGGGCGGUGGCAAGGCAGCUUGCCCCCAGCUUAUGUGGGAAAAUCGUG
.((((((.......(((.((((.((((....))))..)))).)))(((..(((......)))..)))((.((((((....)))))).))......))))))......... ( -39.80)
>consensus
ACCUAAAAGAAUUUAGAAGCGUGCCAUGUAAAUGGGAGCUCAUCUACUUGAUGGGUGGGCGUUGGACGGUGGCAAGGGAGCUUGCCCCCAGUUUAUCUAGGA___CCCUG
.((((............(((((.((((....))))..(((((((.....)))))))..)))))((((((.((((((....)))))).)).))))...))))......... (-25.06 = -27.00 +   1.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:15 2006