Locus 5378

Sequence ID 3L_DroMel_CAF1
Location 14,786,091 – 14,786,251
Length 160
Max. P 0.965158
window8505 window8506

overview

Window 5

Location 14,786,091 – 14,786,211
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 86.50
Mean single sequence MFE -38.43
Consensus MFE -28.76
Energy contribution -29.57
Covariance contribution 0.81
Combinations/Pair 1.16
Mean z-score -3.10
Structure conservation index 0.75
SVM decision value 0.51
SVM RNA-class probability 0.764325
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14786091 120 + 23771897
GAUUCUGGACGUAAAGCACUGAAAACAAGAGGGAUAAUUGCAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACAUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCA
......(((((((((((.((....((((((.(...........).))))))..((((((((((((((((((....)))))))..)))))))))))..........)).))))))))))). ( -44.00)
>DroSec_CAF1 29241 120 + 1
GAUUCUGGACGUAAAACCAUGAAAACAAGAGGGAUAAUUGCAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCA
......(((((((((.(((.....((((((.(...........).))))))..((((((((..((((((((....))))))))....)))))))).........)))...))))))))). ( -36.00)
>DroSim_CAF1 21436 120 + 1
GAUUCUGGACGUAAAACCAUGAAAACAAGAGGGAUAAUUGCAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCA
......(((((((((.(((.....((((((.(...........).))))))..((((((((..((((((((....))))))))....)))))))).........)))...))))))))). ( -36.00)
>DroEre_CAF1 28704 120 + 1
AAUACUGGACGUAAAACCCCCAAAACAAGAGGGAUAAUUGCAACGUUUUGCGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCA
......(((((((((.((((((..(((((...((...((((((....))))))..))......((((((((....))))))))..))))))))))).(((.....)))..))))))))). ( -39.70)
>DroYak_CAF1 29281 120 + 1
GAUACUGGACGUAAAACCCUGAACACAAGAGGGAUAAUUGCAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUCAACUGGAGCUUUAUGUUCA
......(((((((((.((((((((((((((.(...........).))))))).((((((((..((((((((....))))))))....))))))))...))))...)).).))))))))). ( -40.60)
>DroAna_CAF1 28069 115 + 1
GCUUUCAAAUCGAAUUCCUCCGGAAAGGGAUGGAUAAUUGCUGCGGUUUAUGGCUCCGACAUGUGUAAGCCAAAGGGCUUACAAAGUUGUUGGGUAUUU-----UCGAGGUUUAUGGUCC
.............((((((......))))))((((....(((.(((......((.((((((..((((((((....))))))))....))))))))....-----))).))).....)))) ( -34.30)
>consensus
GAUUCUGGACGUAAAACCCUGAAAACAAGAGGGAUAAUUGCAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCA
......(((((((((.........((((((.(...........).))))))..((((((((..((((((((....))))))))....))))))))...............))))))))). (-28.76 = -29.57 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,786,131 – 14,786,251
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.11
Mean single sequence MFE -35.95
Consensus MFE -30.58
Energy contribution -30.50
Covariance contribution -0.08
Combinations/Pair 1.17
Mean z-score -2.53
Structure conservation index 0.85
SVM decision value 1.58
SVM RNA-class probability 0.965158
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14786131 120 + 23771897
CAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACAUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCACACAUCUUGCCCAAGAAGUUAUAACUCCUUAAUCUGUUGU
....(..((((((((((((((((((((((((....)))))))..)))))))(((.((..((...((((((.....)))).))))..)).)))..))))))))))..)............. ( -39.10)
>DroSec_CAF1 29281 120 + 1
CAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCACACAUCUUGCCCAAGAAGUUAUAACUCCUUAAUCUGUUGU
....(..((((((((((((((..((((((((....))))))))....))))(((.((..((...((((((.....)))).))))..)).)))..))))))))))..)............. ( -36.50)
>DroSim_CAF1 21476 120 + 1
CAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCACACAUCUUGCCCAAGAAGUUAUAACUCCUUAAUCUGUUGU
....(..((((((((((((((..((((((((....))))))))....))))(((.((..((...((((((.....)))).))))..)).)))..))))))))))..)............. ( -36.50)
>DroEre_CAF1 28744 120 + 1
CAACGUUUUGCGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCACACAUCUUGGCCCAGAAGUUAUAGCUCCUUAAUCUGUUGU
.........(((((..(((((..((((((((....))))))))....)))))((((...(((.((((.(((..((((....))))...)))))))...)))...)))).......))))) ( -37.20)
>DroYak_CAF1 29321 120 + 1
CAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUCAACUGGAGCUUUAUGUUCACACAUCUUGCCCAAGAAGUUAUAACUCCUUAAUCUGUUGU
(((((..(((.((((((((((..((((((((....))))))))....))))))))((((((...(((.((...((((....))))...))))).)))))).....))..)))..))))). ( -34.90)
>DroAna_CAF1 28109 115 + 1
CUGCGGUUUAUGGCUCCGACAUGUGUAAGCCAAAGGGCUUACAAAGUUGUUGGGUAUUU-----UCGAGGUUUAUGGUCCCACAUCUUGUACUAGAAGUUAUAACUCCUUAAUCCGUUGU
..((((.(((.((.(((((((..((((((((....))))))))....))))))).....-----.((((((...((....)).)))))).................)).))).))))... ( -31.50)
>consensus
CAACGUUUUGUGACUUCGACAUGUGUAAGCCAAAGGGCUUACAAACUUGUUGGGGGAUUUGAACUGGAGCUUUAUGUUCACACAUCUUGCCCAAGAAGUUAUAACUCCUUAAUCUGUUGU
....(..((((((((((((((..((((((((....))))))))....))))..(((..........((((.....))))..........)))..))))))))))..)............. (-30.58 = -30.50 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:46 2006