Locus 5515

Sequence ID 2R_DroMel_CAF1
Location 17,659,381 – 17,659,617
Length 236
Max. P 0.854861
window8831 window8832

overview

Window 1

Location 17,659,381 – 17,659,498
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.60
Mean single sequence MFE -32.08
Consensus MFE -25.44
Energy contribution -24.20
Covariance contribution -1.24
Combinations/Pair 1.26
Mean z-score -1.81
Structure conservation index 0.79
SVM decision value 0.80
SVM RNA-class probability 0.854861
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17659381 117 - 20766785
GGAAAGGUGCCCGAAGAUCUCCAACAAAACGCUCAUAACUGGAGCAUGAAUGCUUAUUUGAGCGGGGAUUUUAUGAUGAUUU-UUU--CAGUUCCUUUGGCAGCCUAUCAUCUAUCGACC
.((.(((((((..(((((((((........((((.......))))......((((....)))))))))))))....(((...-..)--))........)))).))).))........... ( -31.80)
>DroSec_CAF1 12889 115 - 1
GGAAAGGUGCCCAAAGAUCUCCAACAAAACGCUCAUAACUGGAGCAUGAAUGCUUAUUUAAGCGGGGAUUUUAUGAUGAUUUUUUU--CAGUUCUUUUGGCAGCCUU---UCUAUCGACC
(((((((((((.((((((((((........((((.......))))......((((....)))))))))........(((......)--))..))))).)))).))))---)))....... ( -36.30)
>DroSim_CAF1 18854 114 - 1
GGAAAGGUGCCCAAAGAUCUCCAACAAAACGCUCAUAACUGGAGCAUGAAUGCUUAUUUAAGCGGGGAUUUUAUGAUGAUUU-UUU--CAGAUCUUUUGGCAGCCUA---UCUAUUGACC
(((.(((((((.((((((((((........((((.......)))).....(((((....))))).)))........(((...-..)--))))))))).)))).))).---)))....... ( -33.40)
>DroEre_CAF1 13187 114 - 1
GGAAAGGUGGCCGAAGAUCUUUAACAAAACGCUCAUAACUGGAGCAUGAAUGCUUAUUUAACCGGGGAUUUUAUGAUUAUUU-UUU--CAGUAUUUUUGGGAGCCUG---UCCAUCGACG
(((.((((..((((((((((..........((((.......))))..((((.(((........))).))))...........-...--.)).))))))))..)))).---)))....... ( -25.60)
>DroYak_CAF1 24660 115 - 1
GGAAAGGUGGCCGAAGAUCCUCAA-AUAACGCUCAUAACUGGAGCAUGAAUGCUUAUUUAAGCGGGGAUUUUAUGAUAAUUU-UUUUGUAGUUCUUUUGGGAGCCUG---UCCAUCGACC
(((.((((..((((((((((((..-.....((((.......))))......((((....)))))))))))(((..(......-..)..)))....)))))..)))).---)))....... ( -33.30)
>consensus
GGAAAGGUGCCCGAAGAUCUCCAACAAAACGCUCAUAACUGGAGCAUGAAUGCUUAUUUAAGCGGGGAUUUUAUGAUGAUUU_UUU__CAGUUCUUUUGGCAGCCUA___UCUAUCGACC
(((.((((..((((((((((((........((((.......))))......((((....))))))))))))).....((((........))))....)))..))))....)))....... (-25.44 = -24.20 +  -1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,659,498 – 17,659,617
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.65
Mean single sequence MFE -25.90
Consensus MFE -22.76
Energy contribution -23.56
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.88
SVM decision value 0.72
SVM RNA-class probability 0.832151
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17659498 119 + 20766785
ACCACAACAAACCGAUUCGUCUUUAUUCUGCUGCAUUUUAUGGUUUUGCUUAGCUGCACAACCAGUUUGGGUUUUGUUAAUCAAAACGUCAGAGAAACCUUCACGAAUGACA-AAAAAAA
..............((((((.....((((.((((......(((((.(((......))).)))))......((((((.....))))))).)))))))......))))))....-....... ( -24.40)
>DroSec_CAF1 13004 118 + 1
ACCACAACAAACCGAUUCGUCUUUAUUCUGGUGCGUUUUAUGGUUUUGCUUAGCUGCACAACCAGUUUGGGUUUUGUUAAUCAAAACGUCAGAGAAACCUUCACGAAUGACA-AAA-AAA
..................(((...(((((((.(.(((((.(((((.(((......))).))))).(((((((((((.....)))))).))))))))))).))).))))))).-...-... ( -25.50)
>DroSim_CAF1 18968 118 + 1
ACCACAACAAACCGAUUCGUCUUUAUUCUGCUGCGUUUUAUGGUUUUGCUUAGCUGCACAACCAGUUUGGGUUUUGUUAAUCAAAACGUCAGAGAAACCUUCACGAAUGACA-AAA-AAA
..............((((((.....((((.(((((((((.(((((.(((......))).))))).....((((.....)))))))))).)))))))......))))))....-...-... ( -26.30)
>DroEre_CAF1 13301 119 + 1
ACCACAACAAACCGAUUCGUUUUUAUUCUGCUGCGUUUUAUGGUUUUGCUUAGCUGCACAACCAGUUUGGGUUUUGUUAAUCAAAACGUCAGAGAAACCUUUUCGAAUGACA-GAAAAAA
.(((.(((.....((..(((............)))..)).(((((.(((......))).)))))))))))((((((.....))))))((((..(((.....)))...)))).-....... ( -25.50)
>DroYak_CAF1 24775 120 + 1
ACCACAACAAACCGAUUCGUCUUUAUUCUGCUGCGUUUUAUGGUUUUGCUUAGCUGCACAACCAGUUUGGCUUUUGUUAAUCAAAACGUCAGAGAAACCUUCACGAAUGACAAGAAAAAA
..............((((((.....((((.(((((((((.(((((.(((......))).)))))(.(((((....))))).))))))).)))))))......))))))............ ( -27.80)
>consensus
ACCACAACAAACCGAUUCGUCUUUAUUCUGCUGCGUUUUAUGGUUUUGCUUAGCUGCACAACCAGUUUGGGUUUUGUUAAUCAAAACGUCAGAGAAACCUUCACGAAUGACA_AAAAAAA
..............((((((.....((((.(((((((((.(((((.(((......))).))))).....((((.....)))))))))).)))))))......))))))............ (-22.76 = -23.56 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:22 2006