Locus 3662

Sequence ID 2R_DroMel_CAF1
Location 12,156,924 – 12,157,020
Length 96
Max. P 0.999034
window5959 window5960

overview

Window 9

Location 12,156,924 – 12,157,020
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 71.12
Mean single sequence MFE -15.12
Consensus MFE -7.97
Energy contribution -9.72
Covariance contribution 1.75
Combinations/Pair 1.08
Mean z-score -2.82
Structure conservation index 0.53
SVM decision value 3.34
SVM RNA-class probability 0.999034
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12156924 96 + 20766785
UUAAUAUUAAGCUAGCAAACGGAUUUAACUAAUCCGUUGCUGAUAACAAAAACUUUAUGUGUAAAAUUCAACUUACAAAAAAAAAAACAAUAUCUG
...(((((....((((((.((((((.....)))))))))))).................(((((........)))))...........)))))... ( -15.70)
>DroSec_CAF1 12892 78 + 1
UUAAUAUUAAGCUAGCAAACGGAUUUAACUAAUCCGUUGCUAACAACAAAAACUGUAUGUGUCAAAUUCA--------AAAAUUUA----------
............((((((.((((((.....))))))))))))((((((.....))).)))..........--------........---------- ( -15.00)
>DroSim_CAF1 12993 86 + 1
UUAAUAUUAAGCUAGCAAACGGAUUUAACUAAUCCGUUGCUAACAACAAUAACUGUAUGUGUAAAAUUCAACUUACAAAAAAUUUA----------
..........(.((((((.((((((.....)))))))))))).).........((((.((..........)).)))).........---------- ( -16.30)
>DroEre_CAF1 18452 80 + 1
UUAAUAUUUAGCUAGCAUAGCUAGCUA-----------GCUGAUAACAAAAC-UGUAUGUGUAACAUUCAACUUUAA--AAAUUUU--AAUAUCUG
.......(((((((((.......))))-----------))))).........-((.(((.....))).)).......--.......--........ ( -13.50)
>consensus
UUAAUAUUAAGCUAGCAAACGGAUUUAACUAAUCCGUUGCUAACAACAAAAACUGUAUGUGUAAAAUUCAACUUACA_AAAAUUUA__________
............((((((.((((((.....))))))))))))...................................................... ( -7.97 =  -9.72 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,156,924 – 12,157,020
Length 96
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 71.12
Mean single sequence MFE -18.66
Consensus MFE -7.50
Energy contribution -10.50
Covariance contribution 3.00
Combinations/Pair 1.00
Mean z-score -2.78
Structure conservation index 0.40
SVM decision value 1.26
SVM RNA-class probability 0.937534
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12156924 96 - 20766785
CAGAUAUUGUUUUUUUUUUUGUAAGUUGAAUUUUACACAUAAAGUUUUUGUUAUCAGCAACGGAUUAGUUAAAUCCGUUUGCUAGCUUAAUAUUAA
..((((.......((((..((((((......))))))...)))).......))))(((((((((((.....)))))).)))))............. ( -18.44)
>DroSec_CAF1 12892 78 - 1
----------UAAAUUUU--------UGAAUUUGACACAUACAGUUUUUGUUGUUAGCAACGGAUUAGUUAAAUCCGUUUGCUAGCUUAAUAUUAA
----------........--------..........................((((((((((((((.....)))))).)))))))).......... ( -17.50)
>DroSim_CAF1 12993 86 - 1
----------UAAAUUUUUUGUAAGUUGAAUUUUACACAUACAGUUAUUGUUGUUAGCAACGGAUUAGUUAAAUCCGUUUGCUAGCUUAAUAUUAA
----------.........((((((......))))))........(((((..((((((((((((((.....)))))).)))))))).))))).... ( -21.90)
>DroEre_CAF1 18452 80 - 1
CAGAUAUU--AAAAUUU--UUAAAGUUGAAUGUUACACAUACA-GUUUUGUUAUCAGC-----------UAGCUAGCUAUGCUAGCUAAAUAUUAA
..((((((--.......--.((((..((.(((.....))).))-..)))).....(((-----------((((.......))))))).)))))).. ( -16.80)
>consensus
__________UAAAUUUU_UGUAAGUUGAAUUUUACACAUACAGUUUUUGUUAUCAGCAACGGAUUAGUUAAAUCCGUUUGCUAGCUUAAUAUUAA
....................................................((((((((((((((.....)))))).)))))))).......... ( -7.50 = -10.50 +   3.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:13 2006