Locus 4127

Sequence ID 3R_DroMel_CAF1
Location 11,255,444 – 11,255,537
Length 93
Max. P 0.961880
window6614

overview

Window 4

Location 11,255,444 – 11,255,537
Length 93
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 79.55
Mean single sequence MFE -32.10
Consensus MFE -14.64
Energy contribution -15.48
Covariance contribution 0.84
Combinations/Pair 1.27
Mean z-score -3.29
Structure conservation index 0.46
SVM decision value 1.53
SVM RNA-class probability 0.961880
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11255444 93 + 27905053
---UCG--UGGA-----------AC-------CAAAGCAGCAAGGCAACUUGUUGC-GGGGAAUUUUCUAUCUUUCGCCAGCGGCCUUUUCUCUUUGUGCUUUCUGCUUUUCC-AUUU
---..(--((((-----------(.-------....((((((((....))))))))-((.(((..........))).))(((((......(.....)......))))).))))-)).. ( -28.30)
>DroPse_CAF1 15434 99 + 1
CAGCGG--UGGA-----------GCGAUGGAGCGGUGGAGCAGAGUAACUUGUUGUUGGGGAAUUUUC----UUUUGCCAGCGGACUUUUCUCUUUGUG-UUGCUGCUUUUCC-AUUG
...(((--((((-----------(.....((((((..(.((((((......((((((((.(((.....----.))).))))).)))......)))))).-)..))))))))))-)))) ( -35.20)
>DroSec_CAF1 14395 93 + 1
---UCG--UGGA-----------AC-------CAAAGCAGCAAGGCAACUUGUUGC-GGGGAAUUUUCUAUCUUUCGCCAGCGGGCUUUUCUCUUUGUGCUUGCUGCUUUUCC-AUUU
---..(--((((-----------((-------(...((((((((....))))))))-..))...............((.(((((((............)))))))))..))))-)).. ( -34.80)
>DroSim_CAF1 15623 93 + 1
---UCG--UGGA-----------AC-------CAAAGCAGCGAGGCAACUUGUUGC-GGGGAAUUUUCUAUCUUUCGCCAGCGGGCUUUUCUCUUUGUGCUUGCUGCUUUUCC-AUUU
---..(--((((-----------((-------(...((((((((....))))))))-..))...............((.(((((((............)))))))))..))))-)).. ( -34.50)
>DroEre_CAF1 14992 93 + 1
---UCG--UGGA-----------GG-------CAAAGCAACAAGGCAACUUGUUGC-GGGGAAUUUUCUAUCUUUCGCCAGCGGGCUUUUCUCUUUGUGCUUUCUGCUUUUCC-AUUU
---..(--((((-----------((-------(...((((((((....))))))))-((.(((..........))).))((..(((............)))..)))))..)))-)).. ( -30.60)
>DroAna_CAF1 14737 98 + 1
---CUGAAUGGAGCAGAGUCUCAGC-------CAAACUA-----GCAACUUGUUGC-GGGAAAUUUUC----UUUAGCCAGCGGGCUUUUCUCUUUGUGCUUUCUGCUUUUCCCAUUU
---..(((((((((((((....(((-------((((...-----((((....))))-((((((.....----...((((....)))))))))))))).))))))))))....)))))) ( -29.20)
>consensus
___UCG__UGGA___________AC_______CAAAGCAGCAAGGCAACUUGUUGC_GGGGAAUUUUCUAUCUUUCGCCAGCGGGCUUUUCUCUUUGUGCUUGCUGCUUUUCC_AUUU
.........(((........................((((((((....)))))))).((.(((..........))).))(((((......(.....)......)))))..)))..... (-14.64 = -15.48 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:54 2006