Locus 6937

Sequence ID 3R_DroMel_CAF1
Location 18,291,038 – 18,291,179
Length 141
Max. P 0.977857
window11253 window11254

overview

Window 3

Location 18,291,038 – 18,291,149
Length 111
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 82.82
Mean single sequence MFE -42.10
Consensus MFE -25.15
Energy contribution -26.90
Covariance contribution 1.75
Combinations/Pair 1.23
Mean z-score -2.44
Structure conservation index 0.60
SVM decision value 0.18
SVM RNA-class probability 0.621021
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18291038 111 - 27905053
UCCCUCCAGCCCAGACCAGCUGACAAUCGGUUGGUCCUUCACCUGGGUGGGGGUUAGCUCGUUGCCCUGCUUGACCUCCAAGUCAUCGCCAUAGAUGACCUUAAUGGUGCC
...(.(((((((((((((((((.....))))))))).......)))))((((((((((..........)).))))))))..((((((......)))))).....))).).. ( -43.31)
>DroVir_CAF1 2518 111 - 1
GCCCUCCGCGGCCUCCCAGGUCACAAGCGGCUCGUCCUUUACCUGGGUGGGCGUCAGCUCGUUGCCCUCCUGGACAGCGAGCUCACCCGCAUAGCUGACCUUCAGCUUGUC
.......((((((((((((((...(((.((....))))).))))))).))))((.(((((((((.((....)).))))))))).)).)))..(((((.....))))).... ( -49.60)
>DroSec_CAF1 2728 111 - 1
UCCCUCCAGCCCAGCCCAGCUGACAAUCGGCUGGUCCUUCACCUGGGUGGGGGUCAGCUCGUUGCCCUGCUUGACCUCCAGGUCAUCGCCAUAGAUGACCUUAACGGUAUC
.....((.((((((.(((((((.....)))))))........))))))((((((((((..........)).))))))))((((((((......))))))))....)).... ( -48.40)
>DroSim_CAF1 2726 111 - 1
UCCCUCCAGCCCAGACCAGCUGACAAUCGGUUGAUCCUUCACCUGAGUGGGGGUCAGCUCGUUGCCCUGCUUCACCUCCAGGUCAUCGACAUAGAUGACCGUUAUGGUAUC
......((((........)))).((((.((((((((((.(((....))))))))))))).)))).........(((....(((((((......))))))).....)))... ( -38.60)
>DroEre_CAF1 2694 111 - 1
UCCCUCCAGCCCAGACCAGCUGACAAUGGGUUGAUCCUUCACCUGGGUGGGGGUCAGCUCGUUGCCCUGCUUCAGAUCGAGGCCAUCGCCAUAGACGACCUUUAUCGUGCC
......((((........)))).(((((((((((((((.(((....))))))))))))))))))....((....(((.((((.(.((......)).).)))).)))..)). ( -39.10)
>DroYak_CAF1 2726 111 - 1
UCCCUCCAGACCAGACCAGCUGACAUUCGGUUGAUCCUUCACCUGGGUGGGGGUCAGCUCGUUACCUUGCUUCACCUCCAAGCUAUCGCCAUAGGCGACCUUUAUGGUGCC
.............((.((((((.....)))))).))...((((.((((((((((.(((..........)))..))))))).....(((((...))))))))....)))).. ( -33.60)
>consensus
UCCCUCCAGCCCAGACCAGCUGACAAUCGGUUGAUCCUUCACCUGGGUGGGGGUCAGCUCGUUGCCCUGCUUCACCUCCAGGUCAUCGCCAUAGAUGACCUUUAUGGUGCC
.................(((...((((.((((((.(((((((....))))))))))))).))))....)))..(((...((((((((......))))))))....)))... (-25.15 = -26.90 +   1.75)

alignment

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secondary structure

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dotplot

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Window 4

Location 18,291,078 – 18,291,179
Length 101
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 74.88
Mean single sequence MFE -42.55
Consensus MFE -20.30
Energy contribution -20.44
Covariance contribution 0.14
Combinations/Pair 1.24
Mean z-score -2.47
Structure conservation index 0.48
SVM decision value 1.80
SVM RNA-class probability 0.977857
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18291078 101 - 27905053
CACCAUGAGCAGGGUCAAUAGGUUGGAC---UUUCCCUCCAGC---------CCAGACCAGCUGACAAUCGGUUGGUCCUUCACCUGGGUGGGGGUUAGCUCGUUGCCCUGCU
.......(((((((.(((..((((((..---....((((((.(---------((((((((((((.....))))))))).......))))))))))))))))..)))))))))) ( -48.11)
>DroVir_CAF1 2558 104 - 1
CACCAUCAACAGCGUAUGCAGAGUUGCUUCAUCGCCCUCCGCG---------GCCUCCCAGGUCACAAGCGGCUCGUCCUUUACCUGGGUGGGCGUCAGCUCGUUGCCCUCCU
......((((.((....)).(((((((.....(((.....)))---------(((((((((((...(((.((....))))).))))))).))))).))))))))))....... ( -34.80)
>DroPse_CAF1 2965 107 - 1
GACCAUGAGUAGGGUGAGCAGGGUA------UCGCGCUCCUGCCCCUCAUCGCCUUCCCAGGUCACUUUCGGCUCAUCCUUCACCUGUGUGGGGGUCAGCGCGUUGCCCUGCU
.(((........))).(((((((((------.((((((...(((.......((((....)))).......)))....(((((((....)))))))..)))))).))))))))) ( -43.94)
>DroSec_CAF1 2768 101 - 1
CACCAUGAGCAAGGUCAAUAGGUUAGAC---UUUCCCUCCAGC---------CCAGCCCAGCUGACAAUCGGCUGGUCCUUCACCUGGGUGGGGGUCAGCUCGUUGCCCUGCU
.......((((.((.(((..((((.(((---(..((((((((.---------..((.(((((((.....)))))))..))....))))).)))))))))))..))))).)))) ( -40.90)
>DroEre_CAF1 2734 101 - 1
CACCAUGAGCAGGGUGAAUAGGUUGGAC---UUUCCCUCCAGC---------CCAGACCAGCUGACAAUGGGUUGAUCCUUCACCUGGGUGGGGGUCAGCUCGUUGCCCUGCU
.......(((((((......(((((((.---......))))))---------)(((.....))).(((((((((((((((.(((....))))))))))))))))))))))))) ( -48.30)
>DroPer_CAF1 2982 107 - 1
CACCAUGAGUAGGGUGAGCAGCGUA------UCGCGCUCCUGCCCCUCAUCGCUUUCCCAGGUCACUUUCGGCUCAUCCUUCACCUGUGUGGGGGUCAGCGCGUUGCCCUGCU
((((........))))(((((.(((------.((((((...(((((.((.(((......(((...............)))......)))))))))).)))))).))).))))) ( -39.26)
>consensus
CACCAUGAGCAGGGUGAACAGGGUAGAC___UCGCCCUCCAGC_________CCAGCCCAGCUCACAAUCGGCUCAUCCUUCACCUGGGUGGGGGUCAGCUCGUUGCCCUGCU
.......((((((((.(((.(((.................................)))...........((((...(((((((....)))))))..))).)))))))))))) (-20.30 = -20.44 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:41 2006