Locus 3480

Sequence ID 3L_DroMel_CAF1
Location 10,227,015 – 10,227,135
Length 120
Max. P 0.848959
window5433 window5434

overview

Window 3

Location 10,227,015 – 10,227,135
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.67
Mean single sequence MFE -27.07
Consensus MFE -23.00
Energy contribution -23.12
Covariance contribution 0.11
Combinations/Pair 1.10
Mean z-score -1.65
Structure conservation index 0.85
SVM decision value 0.22
SVM RNA-class probability 0.640365
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10227015 120 + 23771897
GGAGUCAACUGCAGGGCACAAUUAAAUUGGCAAAUCCCUCCGACAGUCUGACAAACUGACAAUGCAAAUUAGCACUUAUGCCAUUGAUUAUUGCCAAUUGCCAAUCGAUUCGCACACAAA
.(((((....(((.((((.((((((..(((((...........((((.......))))....(((......)))....)))))))))))..))))...))).....)))))......... ( -26.40)
>DroSec_CAF1 102904 120 + 1
AGAGUCAACUGCAGGGCACAAUUAAAUUGGCAAAUCCCUCCGACAGGCUGGCAAACUGACAAUGCAAAUUAGCACUUAUGCCAUUGAUUAUUGCCAAUUGCCAAUCGAUUCGCACACAAA
.(((((...(((...))).......((((((((...(((.....))).((((((..((((((((((.(........).)).))))).))))))))).)))))))).)))))......... ( -27.10)
>DroSim_CAF1 108320 120 + 1
AGAGUCAACUGCAGGGCACAAUUAAAUUGGCAAAUCCCUCCGACAGGCUGGCAAACUGACAAUGCAAAUUAGCACUUAUGCCAUUGAUUAUUGCCAAUUGCCAAUCGAUUCGCACACAAA
.(((((...(((...))).......((((((((...(((.....))).((((((..((((((((((.(........).)).))))).))))))))).)))))))).)))))......... ( -27.10)
>DroEre_CAF1 109048 120 + 1
AGCGUUAACUGCAGGGCACAAUUAAAUUGGCAAAUCCCUCCGACAGGCUGACAAACUGACAAUGCAAAUUAGCACUUAUGCCAUUGAUUAUUGCCAAUUGCCAAUCGAUGCGCACACAAA
.((((.....(((.((((.((((((..(((((...........(((.........)))....(((......)))....)))))))))))..))))...)))........))))....... ( -26.22)
>DroYak_CAF1 108808 120 + 1
AGAGUCAAUGGCAGGGCACAAUUAAAUUGGCAAAUCCCUCCGACGGGCUGACAAACUGACAAUGCAAAUUAGCACUUAUGCCAUUGAUUAUUGCCAAUUGCCAAUCGAUUCGCACACAAA
.(((((..(((((.((((.((((((..(((((...(((......)))...............(((......)))....)))))))))))..))))...)))))...)))))......... ( -32.70)
>DroAna_CAF1 107030 119 + 1
AGAGUCAAUUGCAGAAAACAAUUAAAAUGGCAA-GCCCUCCGCCAGGCUGACAAACUGACAAUGCAAAUUAGCACUUAUCCCAUUGAUUAUUGCCAAUUGCCAAUCGAUUCGCACACACA
.(((((.(((((((....((((...(((((..(-(((........)))).............(((......)))......)))))....))))....))).)))).)))))......... ( -22.90)
>consensus
AGAGUCAACUGCAGGGCACAAUUAAAUUGGCAAAUCCCUCCGACAGGCUGACAAACUGACAAUGCAAAUUAGCACUUAUGCCAUUGAUUAUUGCCAAUUGCCAAUCGAUUCGCACACAAA
.(((((....(((.((((.((((((..(((((...........(((.........)))....(((......)))....)))))))))))..))))...))).....)))))......... (-23.00 = -23.12 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 10,227,015 – 10,227,135
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.67
Mean single sequence MFE -34.38
Consensus MFE -31.17
Energy contribution -31.75
Covariance contribution 0.58
Combinations/Pair 1.07
Mean z-score -1.36
Structure conservation index 0.91
SVM decision value 0.78
SVM RNA-class probability 0.848959
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10227015 120 - 23771897
UUUGUGUGCGAAUCGAUUGGCAAUUGGCAAUAAUCAAUGGCAUAAGUGCUAAUUUGCAUUGUCAGUUUGUCAGACUGUCGGAGGGAUUUGCCAAUUUAAUUGUGCCCUGCAGUUGACUCC
....((.(((((((..(((((((((((((((......(((((....)))))......)))))))).))))))).((......)))))))))))..((((((((.....)))))))).... ( -32.30)
>DroSec_CAF1 102904 120 - 1
UUUGUGUGCGAAUCGAUUGGCAAUUGGCAAUAAUCAAUGGCAUAAGUGCUAAUUUGCAUUGUCAGUUUGCCAGCCUGUCGGAGGGAUUUGCCAAUUUAAUUGUGCCCUGCAGUUGACUCU
....((.(((((((..(((((((((((((((......(((((....)))))......)))))))).)))))))(((.....))))))))))))..((((((((.....)))))))).... ( -37.40)
>DroSim_CAF1 108320 120 - 1
UUUGUGUGCGAAUCGAUUGGCAAUUGGCAAUAAUCAAUGGCAUAAGUGCUAAUUUGCAUUGUCAGUUUGCCAGCCUGUCGGAGGGAUUUGCCAAUUUAAUUGUGCCCUGCAGUUGACUCU
....((.(((((((..(((((((((((((((......(((((....)))))......)))))))).)))))))(((.....))))))))))))..((((((((.....)))))))).... ( -37.40)
>DroEre_CAF1 109048 120 - 1
UUUGUGUGCGCAUCGAUUGGCAAUUGGCAAUAAUCAAUGGCAUAAGUGCUAAUUUGCAUUGUCAGUUUGUCAGCCUGUCGGAGGGAUUUGCCAAUUUAAUUGUGCCCUGCAGUUAACGCU
.(((((.(((((..((((((((((((((((.......(((((...((((......)))))))))..)))))))(((......)))..)))))))))....))))).).))))........ ( -34.20)
>DroYak_CAF1 108808 120 - 1
UUUGUGUGCGAAUCGAUUGGCAAUUGGCAAUAAUCAAUGGCAUAAGUGCUAAUUUGCAUUGUCAGUUUGUCAGCCCGUCGGAGGGAUUUGCCAAUUUAAUUGUGCCCUGCCAUUGACUCU
.....(..(((.(.((((((((((((((((.......(((((...((((......)))))))))..)))))))(((......)))..))))))))).).)))..)............... ( -33.50)
>DroAna_CAF1 107030 119 - 1
UGUGUGUGCGAAUCGAUUGGCAAUUGGCAAUAAUCAAUGGGAUAAGUGCUAAUUUGCAUUGUCAGUUUGUCAGCCUGGCGGAGGGC-UUGCCAUUUUAAUUGUUUUCUGCAAUUGACUCU
.(((.((((((((.(((..((((((((((...(((.....)))...)))))).))))...))).)))))).(((((......))))-).))))).((((((((.....)))))))).... ( -31.50)
>consensus
UUUGUGUGCGAAUCGAUUGGCAAUUGGCAAUAAUCAAUGGCAUAAGUGCUAAUUUGCAUUGUCAGUUUGUCAGCCUGUCGGAGGGAUUUGCCAAUUUAAUUGUGCCCUGCAGUUGACUCU
....((.(((((((..(((((((((((((((......(((((....)))))......)))))))).)))))))(((.....))))))))))))..((((((((.....)))))))).... (-31.17 = -31.75 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:09 2006