Locus 1292

Sequence ID 2R_DroMel_CAF1
Location 5,032,124 – 5,032,258
Length 134
Max. P 0.733628
window2236 window2237

overview

Window 6

Location 5,032,124 – 5,032,238
Length 114
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 96.47
Mean single sequence MFE -22.21
Consensus MFE -19.48
Energy contribution -19.36
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -1.30
Structure conservation index 0.88
SVM decision value 0.14
SVM RNA-class probability 0.604936
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5032124 114 - 20766785
AUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGAGUCGCUUGAUUUUGGUAAUUUAUUAUUCAAGACUGCUUGCCUACGUUUUUAGACGUUUUUGUGUGGAUUUAAUUU
....((....))..........((((((((((.....((((.((((((...(((((...))))).))))).).))))((..(((((....)))))....))))))))))))... ( -19.90)
>DroSec_CAF1 12180 113 - 1
AUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAUU-UGGUAAUUUAUUAUUCAAGACAGCUUGCCUACGUUUUUAGACGUUUUUGUGUGGAUUUAAUUU
....((....))..........(((((((((((((..(((((....(((.-.(((((.((.((......)).)).)))))...)))....)))))..))).))))))))))... ( -21.90)
>DroSim_CAF1 12210 113 - 1
AUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAUU-UGGUAAUUUAUUAUUCAAGACUGCUUGCCUACGUUUUUAGACGUUUUUGUGUGGAUUUAAUUU
....((....))..........(((((((((((((..(((((....(((.-.(((((..................)))))...)))....)))))..))).))))))))))... ( -21.47)
>DroEre_CAF1 12153 112 - 1
AUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAU--UGAUAAUUUAUUAUUCAAGACUGCUCGCCUACGUUUUAAGACGUUUUUGUGUGGAUUUAAUUU
....((....))..........(((((((((((((..(((((.(((((.--(((((...))))).)))))......((....))......)))))..))).))))))))))... ( -23.40)
>DroYak_CAF1 12324 112 - 1
AUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAU--UGGUAAUUUAUUAUUCAAGACUGGUUGCCUACGUUUUAUGACGUUUUUGUGUGGAUUUAAUUU
....((....))..........(((((((((((((..((((((...(((--.(((((((..((......))..)))))))...)))...))))))..))).))))))))))... ( -24.40)
>consensus
AUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAUU_UGGUAAUUUAUUAUUCAAGACUGCUUGCCUACGUUUUUAGACGUUUUUGUGUGGAUUUAAUUU
....((....))..........(((((((((((((..(((((.(((((...(((((...))))).)))))......((....))......)))))..))).))))))))))... (-19.48 = -19.36 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 7

Location 5,032,160 – 5,032,258
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 96.92
Mean single sequence MFE -17.68
Consensus MFE -16.88
Energy contribution -16.92
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.20
Structure conservation index 0.95
SVM decision value 0.43
SVM RNA-class probability 0.733628
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5032160 98 - 20766785
GAUGUAAUUAAAAAAGAUCAAUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGAGUCGCUUGAUUUUGGUAAUUUAUUAUUCAAGACUGCUUG
((((.(((((...((((((((...((....))............((.((((.....))))))..))))))))..)))))))))...((((....)))) ( -14.20)
>DroSec_CAF1 12216 97 - 1
GAUGUAAUUAAAAAAGAUCAAUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAUU-UGGUAAUUUAUUAUUCAAGACAGCUUG
(((((((((((...(((.....)))(....)....................)))))))))))((((((..-(((((...))))).))))).)...... ( -17.90)
>DroSim_CAF1 12246 97 - 1
GAUGUAAUUAAAAAAGAUCAAUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAUU-UGGUAAUUUAUUAUUCAAGACUGCUUG
(((((((((((...(((.....)))(....)....................))))))))))).(((((..-(((((...))))).)))))........ ( -17.60)
>DroEre_CAF1 12189 96 - 1
GAUGUAAUUAAAAAAGAUCAAUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAU--UGAUAAUUUAUUAUUCAAGACUGCUCG
(((((((((((...(((.....)))(....)....................))))))))))).(((((.--(((((...))))).)))))........ ( -19.60)
>DroYak_CAF1 12360 96 - 1
GAUGUAAUUAAAAAAGAUCAAUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAU--UGGUAAUUUAUUAUUCAAGACUGGUUG
(((((((((((...(((.....)))(....)....................))))))))))).(((((.--(((((...))))).)))))........ ( -19.10)
>consensus
GAUGUAAUUAAAAAAGAUCAAUUCUGGAAACAAAUAUAUACUUUGAAUUCAUUAAUUGCGUCGCUUGAUU_UGGUAAUUUAUUAUUCAAGACUGCUUG
(((((((((((...(((.....)))(....)....................))))))))))).(((((...(((((...))))).)))))........ (-16.88 = -16.92 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:12 2006