Locus 15

Sequence ID 4_DroMel_CAF1
Location 179,842 – 180,039
Length 197
Max. P 0.905913
window25 window26 window27

overview

Window 5

Location 179,842 – 179,962
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.92
Mean single sequence MFE -17.96
Consensus MFE -13.50
Energy contribution -12.58
Covariance contribution -0.92
Combinations/Pair 1.23
Mean z-score -1.91
Structure conservation index 0.75
SVM decision value 0.62
SVM RNA-class probability 0.802685
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 179842 120 - 1281640
GAAUAUAAUGAAGUGAAUAAUCAUUUCAUAUCACCAGAAACACACAAAAAAACAAUUGUGAUUGAAAAUUACACGAACGCAAUAGCUUCCACAAAAGUACAAGACUUAAAUAUAAAAGGA
.......(((((((((....)))))))))....((.......(((((........)))))..............(((.((....))))).....((((.....))))..........)). ( -16.30)
>DroSec_CAF1 6164 120 - 1
GAAUAUAAUGAAGUGAAUAAUCAUUUCAUAACACCAGAAACACACAAAAAAACAAUUGUGGUUCAAAAUUACACGAACGCAAUAGCUUCAACAAAAGUAGAAGAAUUAAAUAUAAAAGGA
.......(((((((((....)))))))))....((.(((...(((((........))))).))).....................((((.((....)).))))..............)). ( -20.10)
>DroSim_CAF1 3951 120 - 1
GAAUAUAAUGAAGUGAAUAAUCAUUUCAUAACACCAGAAACACACAAAAAAACAAUUGUGGUUCAAAAUUACACGAACGCAAUAGCUUCCACAAAAGUAGAAGACUUAAAUAUAAAAGGA
.......(((((((((....)))))))))....((.(((...(((((........))))).)))...................((((((.((....)).)))).))...........)). ( -20.30)
>DroEre_CAF1 8709 120 - 1
AAAUAUAAUGGAGUGAAGAAUCAUUUUAUGAUACCAGGAUCACAUACAAAAAGAAGUAUAAUUCAAACUUACACGAACGCGAUAGCUUCUAGAAAAGUACAUGGUUUAAAUAUCACACGU
.......(((((((((....)))))))))((((...((((((..(((.....(((......)))..........(((.((....))))).......)))..))))))...))))...... ( -18.00)
>DroYak_CAF1 5909 120 - 1
AAAUAUAAUGGAGUGAAGAAUCAUUUCAUGAAUACAGAAACGCAUACAAAAACAAGUAUGAUUCAAACUUACACGAACACGAUAGCUUCUAGAAAAGUACACGGCUUAAAUAUCACACGU
.......(((((((((....)))))))))((.....(((...(((((........))))).)))...............((...((((......))))...)).........))...... ( -15.10)
>consensus
GAAUAUAAUGAAGUGAAUAAUCAUUUCAUAACACCAGAAACACACAAAAAAACAAUUGUGAUUCAAAAUUACACGAACGCAAUAGCUUCCACAAAAGUACAAGACUUAAAUAUAAAAGGA
.......(((((((((....))))))))).......(((...(((((........))))).)))..........(((.((....)))))............................... (-13.50 = -12.58 +  -0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 179,882 – 179,999
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.03
Mean single sequence MFE -20.54
Consensus MFE -14.50
Energy contribution -13.26
Covariance contribution -1.24
Combinations/Pair 1.29
Mean z-score -2.36
Structure conservation index 0.71
SVM decision value 1.04
SVM RNA-class probability 0.905913
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 179882 117 - 1281640
AUAGAAUUUGAAUAG---UAAUUCUAGUUUUACCUUACAGGAAUAUAAUGAAGUGAAUAAUCAUUUCAUAUCACCAGAAACACACAAAAAAACAAUUGUGAUUGAAAAUUACACGAACGC
.(((((((.......---.)))))))(((((.((.....))......(((((((((....))))))))).......))))).(((((........))))).................... ( -20.40)
>DroSec_CAF1 6204 117 - 1
AUAGGAUUUGAAUAA---UAAUUCCAGUUUUACCUUACAGGAAUAUAAUGAAGUGAAUAAUCAUUUCAUAACACCAGAAACACACAAAAAAACAAUUGUGGUUCAAAAUUACACGAACGC
......(((((((..---..(((((.((........)).)))))...(((((((((....))))))))).............(((((........))))))))))))............. ( -21.30)
>DroSim_CAF1 3991 117 - 1
AUAGGAUUUGAAUAA---UAAUUCCAGUUUUACCUUACAGGAAUAUAAUGAAGUGAAUAAUCAUUUCAUAACACCAGAAACACACAAAAAAACAAUUGUGGUUCAAAAUUACACGAACGC
......(((((((..---..(((((.((........)).)))))...(((((((((....))))))))).............(((((........))))))))))))............. ( -21.30)
>DroEre_CAF1 8749 117 - 1
AAAGAAUUCAAAUAA---UAAUUUUGGUUUUACCUUAUAGAAAUAUAAUGGAGUGAAGAAUCAUUUUAUGAUACCAGGAUCACAUACAAAAAGAAGUAUAAUUCAAACUUACACGAACGC
...(((((.......---..((((((((.(((..(((((....)))))((((((((....))))))))))).))))))))...((((........)))))))))................ ( -17.60)
>DroYak_CAF1 5949 120 - 1
AUAGAGUUCAAAUAAUAAUAAUUCUGGAUUUACCUUACAGAAAUAUAAUGGAGUGAAGAAUCAUUUCAUGAAUACAGAAACGCAUACAAAAACAAGUAUGAUUCAAACUUACACGAACAC
.....((((........(((.(((((...........))))).))).(((((((((....))))))))).......(((...(((((........))))).)))..........)))).. ( -22.10)
>consensus
AUAGAAUUUGAAUAA___UAAUUCUAGUUUUACCUUACAGGAAUAUAAUGAAGUGAAUAAUCAUUUCAUAACACCAGAAACACACAAAAAAACAAUUGUGAUUCAAAAUUACACGAACGC
.(((((((.((((.......)))).)))))))...............(((((((((....))))))))).......(((...(((((........))))).)))................ (-14.50 = -13.26 +  -1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 179,922 – 180,039
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.20
Mean single sequence MFE -20.34
Consensus MFE -15.28
Energy contribution -14.78
Covariance contribution -0.50
Combinations/Pair 1.19
Mean z-score -1.58
Structure conservation index 0.75
SVM decision value 0.22
SVM RNA-class probability 0.638091
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 179922 117 - 1281640
UCAUGACAUUAAUAUCUAAGAAGGUAACUGUUAAACUCUCAUAGAAUUUGAAUAG---UAAUUCUAGUUUUACCUUACAGGAAUAUAAUGAAGUGAAUAAUCAUUUCAUAUCACCAGAAA
......................(((..((((..........(((((((.......---.)))))))..........)))).......(((((((((....)))))))))...)))..... ( -20.75)
>DroSec_CAF1 6244 117 - 1
UCAUGACAUUAAUAUCUAAGAAGGUAACUGUUAAACUCUCAUAGGAUUUGAAUAA---UAAUUCCAGUUUUACCUUACAGGAAUAUAAUGAAGUGAAUAAUCAUUUCAUAACACCAGAAA
..............(((...(((((((((((((((..(.....)..)))))....---......))))..))))))...))).....(((((((((....)))))))))........... ( -19.10)
>DroSim_CAF1 4031 117 - 1
UCAUGACAUUAAUAUCUAAGAAGGUAAUUGUUAAACUCUCAUAGGAUUUGAAUAA---UAAUUCCAGUUUUACCUUACAGGAAUAUAAUGAAGUGAAUAAUCAUUUCAUAACACCAGAAA
...(((((....(((((....)))))..)))))..........((..........---..(((((.((........)).)))))...(((((((((....)))))))))....))..... ( -19.60)
>DroYak_CAF1 5989 120 - 1
ACAUGAUAUUAAUGUCUAAUAAGGUAAGUUUAAGAGUCUUAUAGAGUUCAAAUAAUAAUAAUUCUGGAUUUACCUUACAGAAAUAUAAUGGAGUGAAGAAUCAUUUCAUGAAUACAGAAA
...((.((((....(((..(((((((((((((.((((.((((............))))..))))))))))))))))).)))......(((((((((....))))))))).)))))).... ( -21.90)
>consensus
UCAUGACAUUAAUAUCUAAGAAGGUAACUGUUAAACUCUCAUAGAAUUUGAAUAA___UAAUUCCAGUUUUACCUUACAGGAAUAUAAUGAAGUGAAUAAUCAUUUCAUAACACCAGAAA
..............(((...(((((((..............(((((((...........)))))))...)))))))..)))......(((((((((....)))))))))........... (-15.28 = -14.78 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:22 2006