Locus 2037

Sequence ID 3R_DroMel_CAF1
Location 5,785,058 – 5,785,149
Length 91
Max. P 0.710738
window3339 window3340

overview

Window 9

Location 5,785,058 – 5,785,149
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 88.46
Mean single sequence MFE -29.48
Consensus MFE -25.41
Energy contribution -26.48
Covariance contribution 1.06
Combinations/Pair 1.04
Mean z-score -1.55
Structure conservation index 0.86
SVM decision value 0.37
SVM RNA-class probability 0.710738
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5785058 91 + 27905053
UGAUAGCCAUAAGCCAGGCGGCCAACAGGAAGCUGCUGCGUUGGCCAUGACAAGUCGAUGCCAAGACUCUUUCACAGAUUCACUGGUGAGC
............(((((..(((((((.((......))..))))))).(((..((((........))))...)))........))))).... ( -25.90)
>DroSec_CAF1 76857 91 + 1
UGAUAGCCAUAAGCCAGGCGGCCAACAGGAAGCUGCUGAGUUGGCCAAGACAAGUCGAUGGCAAGACUCUUUCCCAGAUUCACUGGGGAGC
.....(((((.........(((((((.((......))..)))))))..((....)).))))).......((((((((.....)))))))). ( -31.20)
>DroSim_CAF1 77425 91 + 1
UGAUAGCCAUAAGCCAGGCGGCCAACAGGAAGCUGCUGAGUUGGCCAAGACAAGUCGAUGCCAAGACUCUUUCCCAGAUUCACUGGGGAGC
.....(((........)))(((((((.((......))..)))))))......((((........)))).((((((((.....)))))))). ( -30.90)
>DroEre_CAF1 72509 78 + 1
-------------CUAGGCGGCCAACAGGAAGCUGCCAAGUUGGCCAAGACAAGUCGAUGCCAAGACUCUUUCCCAGAUUCACUGGGGAGC
-------------((.((((((((((.((......))..)))))))..((....))...))).))....((((((((.....)))))))). ( -29.90)
>consensus
UGAUAGCCAUAAGCCAGGCGGCCAACAGGAAGCUGCUGAGUUGGCCAAGACAAGUCGAUGCCAAGACUCUUUCCCAGAUUCACUGGGGAGC
.....(((........)))(((((((.((......))..)))))))......((((........)))).((((((((.....)))))))). (-25.41 = -26.48 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 5,785,058 – 5,785,149
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 88.46
Mean single sequence MFE -29.98
Consensus MFE -23.41
Energy contribution -23.97
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.55
Structure conservation index 0.78
SVM decision value 0.20
SVM RNA-class probability 0.630996
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5785058 91 - 27905053
GCUCACCAGUGAAUCUGUGAAAGAGUCUUGGCAUCGACUUGUCAUGGCCAACGCAGCAGCUUCCUGUUGGCCGCCUGGCUUAUGGCUAUCA
((((((.((.....))))))..(((((..(((...((....))..(((((((((....)).....)))))))))).)))))...))..... ( -27.90)
>DroSec_CAF1 76857 91 - 1
GCUCCCCAGUGAAUCUGGGAAAGAGUCUUGCCAUCGACUUGUCUUGGCCAACUCAGCAGCUUCCUGUUGGCCGCCUGGCUUAUGGCUAUCA
(((((((((.....)))))...))))...(((((......(((.((((((((.............))))))))...)))..)))))..... ( -30.02)
>DroSim_CAF1 77425 91 - 1
GCUCCCCAGUGAAUCUGGGAAAGAGUCUUGGCAUCGACUUGUCUUGGCCAACUCAGCAGCUUCCUGUUGGCCGCCUGGCUUAUGGCUAUCA
(((.(((((.....)))))...(((((..(((...((....))..(((((((.............)))))))))).)))))..)))..... ( -32.72)
>DroEre_CAF1 72509 78 - 1
GCUCCCCAGUGAAUCUGGGAAAGAGUCUUGGCAUCGACUUGUCUUGGCCAACUUGGCAGCUUCCUGUUGGCCGCCUAG-------------
(((((((((.....)))))...))))...(((...((....))..(((((((..((......)).))))))))))...------------- ( -29.30)
>consensus
GCUCCCCAGUGAAUCUGGGAAAGAGUCUUGGCAUCGACUUGUCUUGGCCAACUCAGCAGCUUCCUGUUGGCCGCCUGGCUUAUGGCUAUCA
(((((((((.....)))))...))))((.(((...((....))..(((((((.............)))))))))).))............. (-23.41 = -23.97 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:52 2006