Locus 5945

Sequence ID 3L_DroMel_CAF1
Location 15,922,538 – 15,922,698
Length 160
Max. P 0.737708
window9496 window9497

overview

Window 6

Location 15,922,538 – 15,922,658
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.72
Mean single sequence MFE -35.58
Consensus MFE -30.75
Energy contribution -29.53
Covariance contribution -1.21
Combinations/Pair 1.43
Mean z-score -1.57
Structure conservation index 0.86
SVM decision value 0.26
SVM RNA-class probability 0.658189
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15922538 120 - 23771897
UCGUUGAUAGUCAGCUGCUGGUCGGUGAGCUCCGAUUUGAGCUCACCCAUUUUUUCCGUCUGCUUGACAAUUAAAGUGCGCAGCUCCCGCACGCAGUUGUGGUCCUUUAGCUCAUCCUUG
..(((((..(.(((((((.....(((((((((......)))))))))..........(((.....))).......(((((.......))))))))))))....)..)))))......... ( -39.80)
>DroVir_CAF1 3903 120 - 1
UCAUUGAUGGUUAGCUGUUGAUCAGUUAUUUCUGUCUUGAGUUGGCCAAUUUGUUCAGUUUGUUUGACAAUUAACGCGCGCAGCUCUCGUACACAGUUGUGAUCCUUAAGCUCGUCCUUG
.....(((((.((((((.....))))))...)))))..(((((.((....((((.(((.....))))))).....)).(((((((.........))))))).......)))))....... ( -24.90)
>DroSim_CAF1 24580 118 - 1
UCGUUGAUAGUCAGCUGCUGGUCGGUGAGCUCCGAU-UGAGCUCACCCAUCUUUUCCGUCUGCUUGACAAU-AAAGUGCGCAGCUCCCGCACGCAGUUGUGGUCCUUUAGCUCAUCCUUG
..(((((..(.(((((((.(((.(((((((((....-.))))))))).)))......(((.....)))...-...(((((.......))))))))))))....)..)))))......... ( -41.50)
>DroEre_CAF1 21919 120 - 1
UCGUUGAUAGUCAGCUGCUGGUCGGUGAGCUCCGAUUUGAGCUCACCCAUCUUUUCCGUCUGCUUGACAAUUAAAGUGCGCAACUCCCGCACGCAGUUGUGGUCCUUUAGCUCAUCCUUG
..(((((..(.(((((((.(((.(((((((((......))))))))).)))......(((.....))).......(((((.......))))))))))))....)..)))))......... ( -41.70)
>DroYak_CAF1 22525 120 - 1
UCGUUGAUUGUCAGCUGCUGGUCGGUGAGCUCCGAUUUGAGUUCACCCAUCUUUUCUGUCUGCUUGACAAUUAAAGUGCGCAGCUCCCGCACGCAGUUGUGGUCCUUUAGCUCAUCCUUG
..(((((..(.(((((((.(((.(((((((((......))))))))).))).....((((.....))))......(((((.......))))))))))))....)..)))))......... ( -39.60)
>DroMoj_CAF1 2301 120 - 1
UCAUUGAUAGUUAGCUGCUGAUCGGUUAUUUCCGUUUUCAGUUGGCCUAUUUGCUCAGUUUGCUUCACAAUCAACACACGCAGCUCACGUACACAGUUAUGAUCCUUGAGCUCGUCCUUG
...(((((.((.(((.(((((.(((......)))...)))))((((......)).))....)))..)).)))))...(((.((((((((((......)))).....)))))))))..... ( -26.00)
>consensus
UCGUUGAUAGUCAGCUGCUGGUCGGUGAGCUCCGAUUUGAGCUCACCCAUCUUUUCCGUCUGCUUGACAAUUAAAGUGCGCAGCUCCCGCACGCAGUUGUGGUCCUUUAGCUCAUCCUUG
.....(((...(((((((.(((.(((((((((......))))))))).)))......(((.....))).......(((((.......))))))))))))..)))................ (-30.75 = -29.53 +  -1.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 15,922,578 – 15,922,698
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.67
Mean single sequence MFE -35.28
Consensus MFE -28.70
Energy contribution -28.10
Covariance contribution -0.60
Combinations/Pair 1.41
Mean z-score -1.84
Structure conservation index 0.81
SVM decision value 0.44
SVM RNA-class probability 0.737708
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15922578 120 - 23771897
ACGCAUAAAGUCCUUGAAUAGCUGCAGCUCGCGCUUCAGUUCGUUGAUAGUCAGCUGCUGGUCGGUGAGCUCCGAUUUGAGCUCACCCAUUUUUUCCGUCUGCUUGACAAUUAAAGUGCG
.(((((.........(((..(((((((((.((...((((....))))..)).)))))).))).(((((((((......)))))))))......))).(((.....))).......))))) ( -39.70)
>DroVir_CAF1 3943 120 - 1
ACGCAUAAAAUCUUUGAAUAAUUGCAGUUCACGCUUUAGCUCAUUGAUGGUUAGCUGUUGAUCAGUUAUUUCUGUCUUGAGUUGGCCAAUUUGUUCAGUUUGUUUGACAAUUAACGCGCG
.(((..........(((((((..(((((....))).(((((((..(((((.((((((.....))))))...))))).)))))))))....)))))))(((.....))).......))).. ( -27.70)
>DroSim_CAF1 24620 117 - 1
ACGCAUAAAGUCC-UGAAUAGCUGAAGCUCGCGCUUCAGUUCGUUGAUAGUCAGCUGCUGGUCGGUGAGCUCCGAU-UGAGCUCACCCAUCUUUUCCGUCUGCUUGACAAU-AAAGUGCG
.(((((...(.((-.....(((((((((....))))))))).((((.....))))....)).)(((((((((....-.)))))))))..........(((.....)))...-...))))) ( -42.00)
>DroEre_CAF1 21959 120 - 1
ACGCAUAAAGUCCUUGAAUAGCUGCAGCUCUCGCUUCAGUUCGUUGAUAGUCAGCUGCUGGUCGGUGAGCUCCGAUUUGAGCUCACCCAUCUUUUCCGUCUGCUUGACAAUUAAAGUGCG
.(((((...(((..(((...((((.(((....))).)))))))..))).((((((.(.(((..(((((((((......)))))))))........))).).)).)))).......))))) ( -39.60)
>DroYak_CAF1 22565 120 - 1
ACGCAUAAAGUCCUUGAAUAGCUGCAGCUCACGCUUCAGUUCGUUGAUUGUCAGCUGCUGGUCGGUGAGCUCCGAUUUGAGUUCACCCAUCUUUUCUGUCUGCUUGACAAUUAAAGUGCG
.(((((.............(((((.(((....))).)))))..((((((((((((.((.(((.(((((((((......))))))))).)))......))..)).)))))))))).))))) ( -41.10)
>DroMoj_CAF1 2341 120 - 1
ACGCAUAAAAUCUUUAAAUAGCUGCAGUUCUCGCUUCAACUCAUUGAUAGUUAGCUGCUGAUCGGUUAUUUCCGUUUUCAGUUGGCCUAUUUGCUCAGUUUGCUUCACAAUCAACACACG
..(((.........(((((((((((((((..(...((((....))))..)..))))))(((.(((......)))...)))...)).))))))).......)))................. ( -21.59)
>consensus
ACGCAUAAAGUCCUUGAAUAGCUGCAGCUCACGCUUCAGUUCGUUGAUAGUCAGCUGCUGGUCGGUGAGCUCCGAUUUGAGCUCACCCAUCUUUUCCGUCUGCUUGACAAUUAAAGUGCG
.(((((.................((((((.((...((((....))))..)).)))))).(((.(((((((((......))))))))).)))......(((.....))).......))))) (-28.70 = -28.10 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:50 2006