Locus 3715

Sequence ID 3L_DroMel_CAF1
Location 10,778,181 – 10,778,323
Length 142
Max. P 0.975148
window5807 window5808

overview

Window 7

Location 10,778,181 – 10,778,285
Length 104
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 83.09
Mean single sequence MFE -23.05
Consensus MFE -18.25
Energy contribution -17.69
Covariance contribution -0.56
Combinations/Pair 1.24
Mean z-score -2.40
Structure conservation index 0.79
SVM decision value 1.74
SVM RNA-class probability 0.975148
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10778181 104 - 23771897
UCAAAACUAAGCAGGCAGACAAUAACAAAUCACGUUCAUCGCAAAAAGGAUGUGAUGGAUGGAGCAUUUGUUCAAAUGCUAUUAGGACUCAAU-GAAAAGGAUAU
......((((...((((......((((((((.(((((((((((.......)))))))))))..).)))))))....)))).))))........-........... ( -24.40)
>DroSec_CAF1 111779 105 - 1
UCAAAACUAAGCAGGCGGACCAUAACAAAUCACGUUCAUCGCAAAAAGGAUGUGAUGGAUGGAGCAUUUGUUCAAAUGCUAUUAGGACUCCUUCAAAAAGGAUAU
......((((...((((......((((((((.(((((((((((.......)))))))))))..).)))))))....)))).))))...(((((....)))))... ( -27.20)
>DroEre_CAF1 117128 104 - 1
UCAAAACUAAGCAGGCAGACAAUAACAAAUCACGUCCAUUGCGAAAAGGAUGUGAUGGAUGGAACAUUUUCUCAAAUGUUAUUAGGACGCCAU-AAGAAGGAUAU
.............(((...((((((((.(((((((((.((....)).)))))))))...(((((....))).))..))))))).)...)))..-........... ( -23.00)
>DroYak_CAF1 130243 86 - 1
UCAAAACUAAGCAGGCAGACAAUAACAAAUCACGUCCAUCGCAAAAAGGAUGUGAUGGAAGGAAC--------AAAUGUUAUUAU-----------GAAGUAUAU
..........((...((...(((((((..((...(((((((((.......)))))))))..))..--------...))))))).)-----------)..)).... ( -17.60)
>consensus
UCAAAACUAAGCAGGCAGACAAUAACAAAUCACGUCCAUCGCAAAAAGGAUGUGAUGGAUGGAACAUUUGUUCAAAUGCUAUUAGGACUCCAU_AAAAAGGAUAU
......((((...((((............((.(((((((((((.......))))))))))))).............)))).)))).................... (-18.25 = -17.69 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,778,220 – 10,778,323
Length 103
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 89.14
Mean single sequence MFE -20.81
Consensus MFE -15.98
Energy contribution -15.72
Covariance contribution -0.25
Combinations/Pair 1.12
Mean z-score -1.74
Structure conservation index 0.77
SVM decision value 0.39
SVM RNA-class probability 0.716525
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10778220 103 - 23771897
-UCAAACCACCCAUAUCAACUGGGUAAAUCAAAGCAAUUUCAAAACUAAGCAGGCAGACAAUAACAAAUCACGUUCAUCGCAAAAAGGAUGUGAUGGAUGGAGC
-.....(((((((.......)))))........((..............)).))..............((.(((((((((((.......))))))))))))).. ( -21.34)
>DroSec_CAF1 111819 101 - 1
-GC--CCCACCCAUAUCAACUGGUUAAAUCAAAGCAAUUUCAAAACUAAGCAGGCGGACCAUAACAAAUCACGUUCAUCGCAAAAAGGAUGUGAUGGAUGGAGC
-((--.(((.((...((..(((.(((....(((....)))......))).)))...)).........(((((((((..........))))))))))).))).)) ( -20.60)
>DroEre_CAF1 117167 102 - 1
UCC--CCCAACCAUAUCAGUUGAGUAAAUCAAAGCAAUUUCAAAACUAAGCAGGCAGACAAUAACAAAUCACGUCCAUUGCGAAAAGGAUGUGAUGGAUGGAAC
...--.(((.((......(((.(((.....(((....)))....))).)))................(((((((((.((....)).))))))))))).)))... ( -20.60)
>DroYak_CAF1 130264 102 - 1
AUC--CCCAACCAAAUCGGUUGAGUAAAUCAAAGCAAUUUCAAAACUAAGCAGGCAGACAAUAACAAAUCACGUCCAUCGCAAAAAGGAUGUGAUGGAAGGAAC
.((--(.(((((.....)))))...................................................(((((((((.......))))))))).))).. ( -20.70)
>consensus
_UC__CCCAACCAUAUCAACUGAGUAAAUCAAAGCAAUUUCAAAACUAAGCAGGCAGACAAUAACAAAUCACGUCCAUCGCAAAAAGGAUGUGAUGGAUGGAAC
......(((.((........(((.....)))....................................(((((((((..........))))))))))).)))... (-15.98 = -15.72 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:04 2006