Locus 6914

Sequence ID 3L_DroMel_CAF1
Location 18,664,012 – 18,664,188
Length 176
Max. P 0.881628
window11209 window11210

overview

Window 9

Location 18,664,012 – 18,664,123
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 92.43
Mean single sequence MFE -27.88
Consensus MFE -24.05
Energy contribution -24.29
Covariance contribution 0.24
Combinations/Pair 1.14
Mean z-score -1.40
Structure conservation index 0.86
SVM decision value 0.57
SVM RNA-class probability 0.785556
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18664012 111 + 23771897
UCUGCUGGAGGAGACUAACUUCAAUAUCUGCAGCUCGCUGAUAGCAAGCAUCAACUCCGCACUCAACUUUUACCUUCAAUGCAUUUUACCAGCGACCGCCCAUCGGACAAC
..((((((.((((.....(((...((((.((.....)).))))..)))......))))(((..................)))......)))))).(((.....)))..... ( -23.07)
>DroSec_CAF1 1301 111 + 1
UCUGCAGGAGGAGGCUAACUUCAAUAUCUGCAGCUCGCUGAUAGGAAGCAUCAACUCCGCACUGAACUUUUACCUUCAAUGCAUUUUACCAGCGACCGCCCACCGGACAAA
.(((((((..((((....))))....))))))).((((((...(((.........)))(((.((((........)))).))).......))))))(((.....)))..... ( -31.00)
>DroSim_CAF1 1257 111 + 1
UCUGCAGGAGGAGGCUAACUUCAAUAUCUGCAGCUCGCUGAUAGGAAGCAUCAACUCCGCACUCAACUUUUACCUUCAAUGCAUUUUACCAGCGACCGCCCACCGGACAAC
.(((((((..((((....))))....))))))).((((((.(((((.((((...........................)))).))))).))))))(((.....)))..... ( -27.43)
>DroEre_CAF1 1246 111 + 1
UCGGCAGGAGGAAGCCAGCUUCAAUAUCUGCUGCUCGCUGAUAGGAAGCAUCGACUCCGCACUCAACUUUUACCUUCAAUGAAUUCUACCAGCGACCGCCCACCGGACACC
.(((((((..((((....))))....))))))).((((((.(((((..(((.((.....................)).)))..))))).))))))(((.....)))..... ( -29.40)
>DroYak_CAF1 1139 111 + 1
UCGGCAGAAGGAGGCCAACUUCAAUAUCUGCUGCUCGCUGAUAGGAAGCAUCAACUCCGCACUGAACUUUUACCUUCAAUGAAUUUCAGCAGCGACCGCCCACCGGACACC
.(((((((..((((....))))....))))))).((((((...(((.........)))...(((((.(((..........))).)))))))))))(((.....)))..... ( -28.50)
>consensus
UCUGCAGGAGGAGGCUAACUUCAAUAUCUGCAGCUCGCUGAUAGGAAGCAUCAACUCCGCACUCAACUUUUACCUUCAAUGCAUUUUACCAGCGACCGCCCACCGGACAAC
.(((((((..((((....))))....))))))).((((((.(((((.((((...........................)))).))))).))))))(((.....)))..... (-24.05 = -24.29 +   0.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,664,083 – 18,664,188
Length 105
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 91.32
Mean single sequence MFE -36.29
Consensus MFE -29.42
Energy contribution -29.86
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.76
Structure conservation index 0.81
SVM decision value 0.92
SVM RNA-class probability 0.881628
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18664083 105 - 23771897
A-------AACUUAUGCAACUGGGCA-------ACUGAGCUUGUUUAGAUUUAUAAGCUGCCACUGUCCUUGGAUGGGCGUUGUCCGAUGGGCGGUCGCUGGUAAAAUGCAUUGAAGGU
.-------..((((((((..((((((-------((..(((((((........)))))))(((...(((....))).)))))))))))((.(((....))).))....)))))..))).. ( -35.10)
>DroSec_CAF1 1372 105 - 1
A-------AACUUAUGCAACUGGGCA-------ACUGAGCUUGUUUAGAUUUAUAAGCUGCCACUGUCCGUGGAUGGGCUUUGUCCGGUGGGCGGUCGCUGGUAAAAUGCAUUGAAGGU
.-------..((((((((((((((((-------(...(((((((........)))))))(((...(((....))).))).))))))))).(((....))).......)))))..))).. ( -33.70)
>DroSim_CAF1 1328 105 - 1
A-------AACUUAUGCAACUGGGCA-------ACUGAGCUUGUUUAGAUUUAUAAGCUGCCACUGUCCUUGGAUGGGCGUUGUCCGGUGGGCGGUCGCUGGUAAAAUGCAUUGAAGGU
.-------..((((((((((((((((-------((..(((((((........)))))))(((...(((....))).))))))))))))).(((....))).......)))))..))).. ( -37.70)
>DroEre_CAF1 1317 119 - 1
AAACUGCAAACUUAUGCAACUGGGCAACUGGCAACUGAGCUUGUUUAGAUUUAUAAGCUGCCACUGUCCUUGGAUGGGCGGUGUCCGGUGGGCGGUCGCUGGUAGAAUUCAUUGAAGGU
...((((.......(((.(((((((....((((.....((((((........))))))))))(((((((......))))))))))))))..))).......)))).............. ( -39.64)
>DroYak_CAF1 1210 105 - 1
A-------AACUUAUGCAGCUGGGCA-------ACUGAGCUUGUUUAGAUUUAUAAGCUGCCACUGUCCUUGGAUGGGCGGUGUCCGGUGGGCGGUCGCUGCUGAAAUUCAUUGAAGGU
.-------.......((((...((((-------.....((((((........)))))))))).))))((((.(((((((((((.(((.....))).)))))))......)))).)))). ( -35.30)
>consensus
A_______AACUUAUGCAACUGGGCA_______ACUGAGCUUGUUUAGAUUUAUAAGCUGCCACUGUCCUUGGAUGGGCGUUGUCCGGUGGGCGGUCGCUGGUAAAAUGCAUUGAAGGU
..........((((((((((((((((...........(((((((........)))))))(((...(((....))).)))..)))))))).(((....))).......)))))..))).. (-29.42 = -29.86 +   0.44)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:55 2006