Locus 8177

Sequence ID 3R_DroMel_CAF1
Location 21,984,211 – 21,984,320
Length 109
Max. P 0.609712
window13148 window13149

overview

Window 8

Location 21,984,211 – 21,984,320
Length 109
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 90.40
Mean single sequence MFE -34.93
Consensus MFE -29.32
Energy contribution -31.10
Covariance contribution 1.78
Combinations/Pair 1.03
Mean z-score -1.86
Structure conservation index 0.84
SVM decision value 0.04
SVM RNA-class probability 0.555860
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21984211 109 + 27905053
AUUACUCGUUAUGAUUGUGCCAGCAUCUGGCAAUAGGAUACCGCACAUAGCAGCCGAAAUUGCCCCGGAUUCUGUUCAAAGAGAUUCCUAUUUGGCUUCAUUCCAGCUG---------
.......((((((....((((((...))))))...((...))...))))))(((.(((...(((..(((.(((........))).))).....)))....)))..))).--------- ( -25.40)
>DroEre_CAF1 25457 118 + 1
AUUACUCGGUAUGAUUGUGCCAGCAUCUGGCAACAGGAUACCGCACAUAGCAGCCGAAAUUGCCCCGGAUUCUGUUGAAAGAGGUUCUUGUUUGGCUACAUUCCAGCUGGCACAUUUC
...............(((((((((.(((..(((((((((.(((......((((......))))..))))))))))))..)))((....(((......)))..)).))))))))).... ( -40.40)
>DroYak_CAF1 24631 118 + 1
AUUACUCGUUAUGAUUGUGCCAGCAUCUGGCAACAGGAUACCGCACAUAGCAGCUGAAAUUGCCCCGGAUUCUGUUGAAAGAGGUUCUUGUUUGGCUUCAUUCCAGCUGGCACAUUUC
...............(((((((((.(((..(((((((((.((((.....)).((.......))...)))))))))))..)))((....((........))..)).))))))))).... ( -39.00)
>consensus
AUUACUCGUUAUGAUUGUGCCAGCAUCUGGCAACAGGAUACCGCACAUAGCAGCCGAAAUUGCCCCGGAUUCUGUUGAAAGAGGUUCUUGUUUGGCUUCAUUCCAGCUGGCACAUUUC
...............(((((((((.(((..(((((((((.(((......((((......))))..))))))))))))..)))..........(((.......)))))))))))).... (-29.32 = -31.10 +   1.78)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 21,984,211 – 21,984,320
Length 109
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 90.40
Mean single sequence MFE -35.73
Consensus MFE -29.25
Energy contribution -30.70
Covariance contribution 1.45
Combinations/Pair 1.04
Mean z-score -2.05
Structure conservation index 0.82
SVM decision value 0.15
SVM RNA-class probability 0.609712
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21984211 109 - 27905053
---------CAGCUGGAAUGAAGCCAAAUAGGAAUCUCUUUGAACAGAAUCCGGGGCAAUUUCGGCUGCUAUGUGCGGUAUCCUAUUGCCAGAUGCUGGCACAAUCAUAACGAGUAAU
---------((((((((((...(((.....(((.(((........))).)))..))).))))))))))...(((((((((((.........)))))).)))))............... ( -33.90)
>DroEre_CAF1 25457 118 - 1
GAAAUGUGCCAGCUGGAAUGUAGCCAAACAAGAACCUCUUUCAACAGAAUCCGGGGCAAUUUCGGCUGCUAUGUGCGGUAUCCUGUUGCCAGAUGCUGGCACAAUCAUACCGAGUAAU
....(((((((((((((.(((......))).(((.....))).......)))).((((((....(((((.....))))).....))))))....)))))))))............... ( -37.30)
>DroYak_CAF1 24631 118 - 1
GAAAUGUGCCAGCUGGAAUGAAGCCAAACAAGAACCUCUUUCAACAGAAUCCGGGGCAAUUUCAGCUGCUAUGUGCGGUAUCCUGUUGCCAGAUGCUGGCACAAUCAUAACGAGUAAU
....((((((((((((.......)))........((...(((....)))...))((((((....(((((.....))))).....))))))....)))))))))............... ( -36.00)
>consensus
GAAAUGUGCCAGCUGGAAUGAAGCCAAACAAGAACCUCUUUCAACAGAAUCCGGGGCAAUUUCGGCUGCUAUGUGCGGUAUCCUGUUGCCAGAUGCUGGCACAAUCAUAACGAGUAAU
....((((((((((((.......)))......................(((...((((((....(((((.....))))).....)))))).))))))))))))............... (-29.25 = -30.70 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:23 2006