Locus 8397

Sequence ID 3R_DroMel_CAF1
Location 22,364,424 – 22,364,553
Length 129
Max. P 0.757380
window13526 window13527

overview

Window 6

Location 22,364,424 – 22,364,522
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 93.59
Mean single sequence MFE -39.12
Consensus MFE -34.49
Energy contribution -35.05
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.46
Structure conservation index 0.88
SVM decision value 0.49
SVM RNA-class probability 0.756092
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22364424 98 + 27905053
UCCCACCGAAUGGCCUGGUCCUAAGCUCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGCCCAGGGCCAUUCCCCCA
.......((((((((....((..((((.....))))...))((((((..((....((((((....))))))...))...))))))))))))))..... ( -38.50)
>DroSec_CAF1 5639 95 + 1
UCCCACCGAAUGGCCUGGUCCUAAGCUCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGGCCAGGGCCAUUCCC---
.......((((((((((..(((........)))..)..((((((((...((....((((((....))))))...)))))))))))))))))))..--- ( -41.70)
>DroSim_CAF1 1096 95 + 1
UCCCACCGAAUGGCCUGGUCCUAAGCUCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGCCCAGGGCCAUUCCC---
.......((((((((....((..((((.....))))...))((((((..((....((((((....))))))...))...))))))))))))))..--- ( -38.50)
>DroEre_CAF1 1183 98 + 1
UCCCACCGAAUGGCCUGGUCCUAAGCUCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGCCCAGGGCCAUUCCUUCA
.......(((.((..(((((((..((....(((((..(((.(((((...((.....))...)))))...)))..)))))))..)))))))..))))). ( -38.60)
>DroYak_CAF1 1190 98 + 1
UCCCACCGAAUGGCCUGGUCCUAAGCUCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGCCCAUGGCCAUUCCUCCA
.......(((((((((((......((....(((((..(((.(((((...((.....))...)))))...)))..)))))))))).))))))))..... ( -37.30)
>DroAna_CAF1 10814 97 + 1
UCCCGGCG-AUGGCCUGGCCCUAAGCUCAAGGGGUUGAUGGCUAGGCACGUAAUUUGCAUCCCCGGGUGCGAUGACCCCGCCCAGGGCCAGUUUUCCG
.(((((((-(((((((((((...((((.....))))...)))))))).)))...(((((((....)))))))......))))..)))........... ( -40.10)
>consensus
UCCCACCGAAUGGCCUGGUCCUAAGCUCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGCCCAGGGCCAUUCCCCCA
.......(((((((((((((...((((.....))))...))))((((..((....((((((....))))))...))...)))).)))))))))..... (-34.49 = -35.05 +   0.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 22,364,450 – 22,364,553
Length 103
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 76.15
Mean single sequence MFE -34.40
Consensus MFE -25.04
Energy contribution -25.48
Covariance contribution 0.44
Combinations/Pair 1.13
Mean z-score -1.39
Structure conservation index 0.73
SVM decision value 0.49
SVM RNA-class probability 0.757380
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22364450 103 + 27905053
UCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGCCCAGGGCCAUUCCCCCAUCUCCUGCACCCCCUGUUCCUC-------CUUA--UGGCG
.((.(((((.(((((((((((..((....((((((....))))))...))...))))))((......)))))))......))))).)).....(-------(...--.)).. ( -34.10)
>DroSec_CAF1 5665 91 + 1
UCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGGCCAGGGCCAUUCCC--------------CCCUGUUCCUC-------CUUGUACAGCG
...(((((..(((((((.(((.((.....((((((....)))))).......)))))..)))))))..)--------------)))).......-------........... ( -35.60)
>DroSim_CAF1 1122 91 + 1
UCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGCCCAGGGCCAUUCCC--------------CCCUAUUCCUC-------CUUGUACAGCG
...(((((..(((((((((((..((....((((((....))))))...))...))))..)))))))..)--------------)))).......-------........... ( -36.60)
>DroYak_CAF1 1216 109 + 1
UCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGCCCAUGGCCAUUCCUCCACCUCG---ACAUCCAUCUCCUCCAUCUAUCUCCUCUAUCG
((.(((((..(((((((((((..((....((((((....))))))...))...))))..)))))))...)).))).)---)............................... ( -31.90)
>DroAna_CAF1 10839 94 + 1
UCAAGGGGUUGAUGGCUAGGCACGUAAUUUGCAUCCCCGGGUGCGAUGACCCCGCCCAGGGCCAGUUUUCCGCCACA---GCCACAA--UCGCC-------CUCCU------
....(((((((.(((((.(((..((...(((((((....)))))))..))(((.....)))..........)))..)---)))))))--)).))-------.....------ ( -33.80)
>consensus
UCAAGGGGUUGAUGGCUGGGCACGUAAUUUGCAUCCCCGGGUGCGUUGACCCCGCCCAGGGCCAUUCCCCC__C_C_____C_CCCUGUUCCUC_______CUUCU_CAGCG
....((((..(((((((((((..((....((((((....))))))...))...))))..))))))))))).......................................... (-25.04 = -25.48 +   0.44)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:33 2006