Locus 5486

Sequence ID	3R_DroMel_CAF1
Location	14,460,616 – 14,460,724
Length	108
Max. P	0.991678

overview

Window 0

Location	14,460,616 – 14,460,724
Length	108
Sequences	3
Columns	117
Reading direction	forward
Mean pairwise identity	80.41
Mean single sequence MFE	-35.30
Consensus MFE	-20.33
Energy contribution	-21.56
Covariance contribution	1.23
Combinations/Pair	1.13
Mean z-score	-2.87
Structure conservation index	0.58
SVM decision value	1.22
SVM RNA-class probability	0.931840
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14460616 108 + 27905053
ACUGGGGAAAAGAGCAACAUUAACGAGGAUAAUACAGUUGGCAUGAUGA------UGAUGAACAUCAUCGGACCGAUGGAACAAGGAGGAUGCUCCGCUGUCCUUGUU---GCUGCG
.............(((....(((((((((((.....(((((..((((((------((.....))))))))..))))).......((((....))))..))))))))))---).))). ( -36.40)
>DroSim_CAF1 18609 117 + 1
ACUGGGGAAAAGAGCAACAUUAACGAGGAUAAUUCAGUUGGCAUGAUGAUGAUGAUGAUGAACAUCAUCGGACCAAUGGAACAAGGAGGAUGCUCCGCUGUCCUUGUUUCUGCUGCG
.............(((.((..((((((((((.(((.(((((..((((((((...........))))))))..))))).)))...((((....))))..))))))))))..)).))). ( -40.80)
>DroYak_CAF1 20408 95 + 1
ACUG-GAAAAACAACAACAUUAACGAGGAUAAUGAAGUUGGCAUGA------------UGAACAUCAUCGGCCCAGUGGAACAAG---GAUGCUCUGCUGUCCUU------GCCGUG
((((-(.....((((..(((((.......)))))..))))((.(((------------((.....))))))))))))((..((((---(((((...)).))))))------)))... ( -28.70)
>consensus
ACUGGGGAAAAGAGCAACAUUAACGAGGAUAAUACAGUUGGCAUGAUGA______UGAUGAACAUCAUCGGACCAAUGGAACAAGGAGGAUGCUCCGCUGUCCUUGUU___GCUGCG
.............(((.(...((((((((((.....(((((..((((((...............))))))..)))))(((.((.......)).)))..))))))))))...).))). (-20.33 = -21.56 +   1.23)

alignment

secondary structure

dotplot

Window 1

Location	14,460,616 – 14,460,724
Length	108
Sequences	3
Columns	117
Reading direction	reverse
Mean pairwise identity	80.41
Mean single sequence MFE	-33.03
Consensus MFE	-19.66
Energy contribution	-21.11
Covariance contribution	1.45
Combinations/Pair	1.11
Mean z-score	-3.59
Structure conservation index	0.60
SVM decision value	2.28
SVM RNA-class probability	0.991678
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14460616 108 - 27905053
CGCAGC---AACAAGGACAGCGGAGCAUCCUCCUUGUUCCAUCGGUCCGAUGAUGUUCAUCA------UCAUCAUGCCAACUGUAUUAUCCUCGUUAAUGUUGCUCUUUUCCCCAGU
.(((((---(((.(((((((.((((((.......))))))...(((..(((((((.....))------)))))..)))..))).....)))).))...))))))............. ( -33.80)
>DroSim_CAF1 18609 117 - 1
CGCAGCAGAAACAAGGACAGCGGAGCAUCCUCCUUGUUCCAUUGGUCCGAUGAUGUUCAUCAUCAUCAUCAUCAUGCCAACUGAAUUAUCCUCGUUAAUGUUGCUCUUUUCCCCAGU
.((((((..(((.(((((((.((((((.......)))))).(((((..(((((((...........)))))))..)))))))).....)))).)))..))))))............. ( -37.70)
>DroYak_CAF1 20408 95 - 1
CACGGC------AAGGACAGCAGAGCAUC---CUUGUUCCACUGGGCCGAUGAUGUUCA------------UCAUGCCAACUUCAUUAUCCUCGUUAAUGUUGUUGUUUUUC-CAGU
...((.------(((((((((((((((((---.(((..((...))..))).))))))).------------............(((((.......))))).)))))))))))-)... ( -27.60)
>consensus
CGCAGC___AACAAGGACAGCGGAGCAUCCUCCUUGUUCCAUUGGUCCGAUGAUGUUCAUCA______UCAUCAUGCCAACUGAAUUAUCCUCGUUAAUGUUGCUCUUUUCCCCAGU
.(((((...(((.(((((((.((((((.......)))))).))).....((((((..............)))))).............)))).)))...)))))............. (-19.66 = -21.11 +   1.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:18 2006