Locus 1298

Sequence ID 2L_DroMel_CAF1
Location 3,428,529 – 3,428,666
Length 137
Max. P 0.978742
window2125 window2126

overview

Window 5

Location 3,428,529 – 3,428,631
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.89
Mean single sequence MFE -45.33
Consensus MFE -26.87
Energy contribution -27.19
Covariance contribution 0.31
Combinations/Pair 1.40
Mean z-score -4.04
Structure conservation index 0.59
SVM decision value 1.82
SVM RNA-class probability 0.978742
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3428529 102 + 22407834
ACACUUUCGUGACUGGCUGGCCAGGCAGGCAGUCGGCAAUGUUUGUUUGUUUGUC---GGCUGGUCGCUCGGUUUGUUUGCGA---GCCGGGCUGAAAGUGAAAGGCA------------
.(((((((..(((..((((((.((((((((((.((....)).)))))))))))))---)))..)))((((((((((....)))---))))))).))))))).......------------ ( -53.20)
>DroSec_CAF1 17471 98 + 1
ACACUUUCGUGACUGGCUGGCCAG----GCAGUCGGCAAUGUUUGUUUGUUUGUC---GGCUGGUCGCUCGGUUUGUUUGCGA---GCCGGGUUGAAAGUGAAAGGCA------------
.((((((((.(((..(((((((((----((((.((....)).)))))))...)))---)))..)))((((((((((....)))---))))))))))))))).......------------ ( -45.60)
>DroAna_CAF1 19733 105 + 1
ACACUUUCGUGACUGGCCAGCCGG----GCA----GCAAUGUUUGUUUGUCUGUU---U----GGCGGUUGGUGAGUUUGCCAAGCACCGAGCGGAAAGUGAAAGGCACUGCCAGGGGAG
.(((....))).((((((((.(((----(((----....)))))).)))((((((---(----((.(.(((((......))))).).))))))))).((((.....)))))))))..... ( -40.30)
>DroSim_CAF1 17581 98 + 1
ACACUUUCGUGACUGGCUGGCCAG----GCAGUCGGCAAUGUUUGUUUGUUUGUC---GGCUGGUCGCUCGGUUUGUUUGCCA---GCCGGGCUGAAAGUGAAAGGCA------------
.(((((((..(((..(((((((((----((((.((....)).)))))))...)))---)))..)))((((((((.(....).)---))))))).))))))).......------------ ( -44.30)
>DroEre_CAF1 17926 101 + 1
ACACUUUCGUGACUGGCCGGGCAG----GCAGUCGGUAAUGUUUGUUUGUUUGGCGGCGGCUGGUCGCCCGGUUUGUUUGCCA---GCCGGGCUGAAAGUGAAAGGCA------------
.(((((((..(((..(((((.(((----((((.(((......))).))))))).)..))))..)))((((((((.(....).)---))))))).))))))).......------------ ( -48.90)
>DroYak_CAF1 19008 94 + 1
ACACUUUCGUGACCAGC----CAG----GCAGUGGGUAAUGUUUGUUUGUUUGUU---GCCUGGUCGCUCGGUUUGUUUGCGA---GUCGGGCUGAAAGUGAAAGGCA------------
.(((((((.......((----(((----((((..(((((.......)))))..))---))))))).(((((..(((....)))---..))))).))))))).......------------ ( -39.70)
>consensus
ACACUUUCGUGACUGGCUGGCCAG____GCAGUCGGCAAUGUUUGUUUGUUUGUC___GGCUGGUCGCUCGGUUUGUUUGCCA___GCCGGGCUGAAAGUGAAAGGCA____________
.(((((((..((((((((.(.(((....((((..........))))....))).)...))))))))(((((((.............))))))).)))))))................... (-26.87 = -27.19 +   0.31)

alignment

Postscript

secondary structure

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dotplot

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Window 6

Location 3,428,569 – 3,428,666
Length 97
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.25
Mean single sequence MFE -36.23
Consensus MFE -16.97
Energy contribution -17.05
Covariance contribution 0.09
Combinations/Pair 1.32
Mean z-score -2.28
Structure conservation index 0.47
SVM decision value -0.04
SVM RNA-class probability 0.511000
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3428569 97 + 22407834
GUUUGUUUGUUUGUC---GGCUGGUCGCUCGGUUUGUUUGCGA---GCCGGGCUGAAAGUGAAAGGCA---------------GCCAGCUCGGUUGGUUUGGGCCAAA--CAAAACAAUA
..(((((((((((..---(((((.((((((((((((....)))---)))))))(....).....))))---------------))).((((((.....))))))))))--).)))))).. ( -37.80)
>DroSec_CAF1 17507 97 + 1
GUUUGUUUGUUUGUC---GGCUGGUCGCUCGGUUUGUUUGCGA---GCCGGGUUGAAAGUGAAAGGCA---------------GCCAGCUCGGUUGGUUUGGGCCAAA--CAAAACAAUA
..(((((((((((..---(((((.((((((((((((....)))---)))))).)))...(....).))---------------))).((((((.....))))))))))--).)))))).. ( -35.60)
>DroAna_CAF1 19765 110 + 1
GUUUGUUUGUCUGUU---U----GGCGGUUGGUGAGUUUGCCAAGCACCGAGCGGAAAGUGAAAGGCACUGCCAGGGGAGCCGGCCAAGUCAAAUGGUUCGAGCCAG---CAAAAAAAUA
(((((((((((((((---(----((.(.(((((......))))).).))))))))).((((.....))))(((.((....))))))))).)))))(((....)))..---.......... ( -36.50)
>DroSim_CAF1 17617 97 + 1
GUUUGUUUGUUUGUC---GGCUGGUCGCUCGGUUUGUUUGCCA---GCCGGGCUGAAAGUGAAAGGCA---------------GCCAGCUCGGUUGGUUUGGGCCAAA--CAAAACAAUA
..((((((((((...---(((.....))).(((..(...((((---(((((((((...((.....)).---------------..))))))))))))).)..))))))--).)))))).. ( -36.50)
>DroEre_CAF1 17962 100 + 1
GUUUGUUUGUUUGGCGGCGGCUGGUCGCCCGGUUUGUUUGCCA---GCCGGGCUGAAAGUGAAAGGCA---------------GGCAACGCGGAUGGUUUGGGCCAAC--AGAAACAAUA
..((((((.(((((((((((....)))))(.(((((((((((.---(((...(.......)...))).---------------))))).)))))).).....))))).--).)))))).. ( -36.60)
>DroYak_CAF1 19040 99 + 1
GUUUGUUUGUUUGUU---GCCUGGUCGCUCGGUUUGUUUGCGA---GUCGGGCUGAAAGUGAAAGGCA---------------GCCAACUCGGUUGGUUUGGGCCAAACAAAAAACAAUA
((((.((((((((..---(((..(.((((((..(((....)))---..))))).............((---------------(((.....)))))).)..))))))))))))))).... ( -34.40)
>consensus
GUUUGUUUGUUUGUC___GGCUGGUCGCUCGGUUUGUUUGCCA___GCCGGGCUGAAAGUGAAAGGCA_______________GCCAACUCGGUUGGUUUGGGCCAAA__CAAAACAAUA
..((((((..................(((((((.............)))))))...........(((................((((((...))))))....))).......)))))).. (-16.97 = -17.05 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:02 2006