Locus 142

Sequence ID X_DroMel_CAF1
Location 528,220 – 528,365
Length 145
Max. P 0.997055
window203 window204

overview

Window 3

Location 528,220 – 528,334
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.08
Mean single sequence MFE -21.16
Consensus MFE -13.90
Energy contribution -15.58
Covariance contribution 1.68
Combinations/Pair 1.06
Mean z-score -2.79
Structure conservation index 0.66
SVM decision value 2.79
SVM RNA-class probability 0.997055
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 528220 114 + 22224390
UUUAACUGCUUCCAACGCUUCCUCCCACUGACGCAUAAAUCUGCAGCUGCGUGCGACUUUUUCCACCCACAAAAGUCCACAAAAGCCGUCUUAAGCAUUUAUCAUUUACCAUUU------
..(((.(((((...(((...............(((......))).(((..(((.(((((((.........))))))))))...))))))...))))).))).............------ ( -20.50)
>DroSec_CAF1 14925 113 + 1
UUUAACUGCUUCCAACGCUUCCUCCCACUGACGCAUAAAUCUGCGGCUGCGUGCGACUUUUGCCACCCACUAAAGUCC-CAAAAGCCGUCUUAAGCAUUUAUCAUUUACCAUUU------
..(((.(((((.....((.((........)).))........((((((...((.((((((...........)))))).-))..))))))...))))).))).............------ ( -22.70)
>DroSim_CAF1 15244 113 + 1
UUUAACUGCUUCCAACGCUUCCUCCCACUGACGCAUAAAUCUGCGGCUGCGUGCGACUUUUGCCACCCACAAAAGUCC-CAAAAGCCGUCUAAAGCAUUUAUCAUUUACCAUUU------
..(((.(((((.....((.((........)).))........((((((...((.((((((((.......)))))))).-))..))))))...))))).))).............------ ( -26.80)
>DroEre_CAF1 19949 102 + 1
------------------CUUCCCCCACUGGCGCAUAAAUCUGCGGCUGCGUGUGACUUUUGCCACCCACAAGCGUCCACAAAAGCCCUCUUCAUCAUGAAUCAUUUACCAUUUACCAUU
------------------..........(((.(((......)))((((..(((.(((.((((.......)))).))))))...)))).....................)))......... ( -18.40)
>DroYak_CAF1 14380 89 + 1
------------------UUUCUACAA------CAUAAAUCUGCGGCUGCGUGCGACU-UUGCCACCCACAAACGUCCACAAAAGCCGUCUUCAUCAUUAAUCAUUUACCACUU------
------------------.........------.........((((((..(((.((((-(((.......)))).))))))...)))))).........................------ ( -17.40)
>consensus
UUUAACUGCUUCCAACGCUUCCUCCCACUGACGCAUAAAUCUGCGGCUGCGUGCGACUUUUGCCACCCACAAAAGUCCACAAAAGCCGUCUUAAGCAUUUAUCAUUUACCAUUU______
..........................................((((((..(((.((((((((.......)))))))))))...))))))............................... (-13.90 = -15.58 +   1.68)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 4

Location 528,260 – 528,365
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.90
Mean single sequence MFE -17.42
Consensus MFE -13.90
Energy contribution -15.58
Covariance contribution 1.68
Combinations/Pair 1.06
Mean z-score -1.65
Structure conservation index 0.80
SVM decision value 0.50
SVM RNA-class probability 0.759206
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 528260 105 + 22224390
CUGCAGCUGCGUGCGACUUUUUCCACCCACAAAAGUCCACAAAAGCCGUCUUAAGCAUUUAUCAUUUACCAUUU-------ACUGCAUCGCAUUCCUUUACCAUUCGCAUCC--------
.(((((....(((.(((((((.........))))))))))....((........))..................-------.))))).........................-------- ( -15.80)
>DroSec_CAF1 14965 112 + 1
CUGCGGCUGCGUGCGACUUUUGCCACCCACUAAAGUCC-CAAAAGCCGUCUUAAGCAUUUAUCAUUUACCAUUU-------ACUGUAUAGCAUUCCUUUACCAUUCGCAUCCCCUUUCUU
.(((((((...((.((((((...........)))))).-))..))))...........................-------...(((.((.....)).))).....)))........... ( -16.70)
>DroSim_CAF1 15284 112 + 1
CUGCGGCUGCGUGCGACUUUUGCCACCCACAAAAGUCC-CAAAAGCCGUCUAAAGCAUUUAUCAUUUACCAUUU-------ACUGUAUAGCAUUCCUUUACCAUUCGCAUCCCCUUUCUU
.(((((((...((.((((((((.......)))))))).-))..))))...........................-------...(((.((.....)).))).....)))........... ( -20.70)
>DroEre_CAF1 19971 109 + 1
CUGCGGCUGCGUGUGACUUUUGCCACCCACAAGCGUCCACAAAAGCCCUCUUCAUCAUGAAUCAUUUACCAUUUACCAUUUGCUGUAUACCAUUGCUAUACCAUUC-----------CUC
..((((((..(((.(((.((((.......)))).))))))...))))...(((.....)))....................)).(((((.......))))).....-----------... ( -16.50)
>DroYak_CAF1 14396 101 + 1
CUGCGGCUGCGUGCGACU-UUGCCACCCACAAACGUCCACAAAAGCCGUCUUCAUCAUUAAUCAUUUACCACUU-------ACUGUACACCAUUGCCAUACCAUUC-----------CUU
..((((((..(((.((((-(((.......)))).))))))...)))))).........................-------.........................-----------... ( -17.40)
>consensus
CUGCGGCUGCGUGCGACUUUUGCCACCCACAAAAGUCCACAAAAGCCGUCUUAAGCAUUUAUCAUUUACCAUUU_______ACUGUAUAGCAUUCCUUUACCAUUCGCAUCC_____CUU
..((((((..(((.((((((((.......)))))))))))...))))))....................................................................... (-13.90 = -15.58 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:08 2006