Locus 626

Sequence ID 3R_DroMel_CAF1
Location 2,316,008 – 2,316,120
Length 112
Max. P 0.730285
window996

overview

Window 6

Location 2,316,008 – 2,316,120
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.59
Mean single sequence MFE -43.13
Consensus MFE -27.00
Energy contribution -26.70
Covariance contribution -0.30
Combinations/Pair 1.37
Mean z-score -1.71
Structure conservation index 0.63
SVM decision value 0.42
SVM RNA-class probability 0.730285
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2316008 112 + 27905053
--GAUGCAGGGGCAGCGGGGGCAGUGGCGGUACAUGCCACGCCUACCGGUGCAGCGGC------GGUGGGCGUGGGAGCGGAGGUUGUGAUGCUAAUAGUGAUGUAAGUGGUAUCAGUAU
--(((((.(..(((.(((((((.((((((.....)))))))))).))).)))..).((------....(((((.(.(((....))).).)))))....))..........)))))..... ( -43.20)
>DroSim_CAF1 21950 105 + 1
--GAUGCAGGGGCAGCGGGGGCAGUGGCGGCACAUGCCACGCCUACCGGUGCAGCGGC------GGUGGGCGUGGGAGCGGAGGUUGUGAUGCUAAUAGUGAUGUAAGUGCAC-------
--..((((...(((((...((((.(.(((((.(.(.((((((((((((.((...)).)------))))))))))).)..)...))))).)))))....))..)))...)))).------- ( -43.40)
>DroEre_CAF1 27168 116 + 1
--GUUGCAGGGGCAGCGGGGGCAGUGGCGGCACAUGCCACGCCUACCGCUGCAGCGGCGGAGGCGGUGGGCGUGGGAGCGGAGGUUGUGAUGUAAACAGUGAUGUAAGUGCCAUCAGC--
--(((((....)))))(..((((((.(((((.(.(.((((((((((((((((....))...)))))))))))))).)..)...))))).))....(((....)))...))))..)...-- ( -52.20)
>DroWil_CAF1 87143 107 + 1
CGGCUGCAGAGGAAGUGGGGGCAGUGGCAGC---UGUCAUGCCCGACGUUGCAGUGGC------GGUGGUCGGGGCAGCGGAGGUUGUGAUGUUAACAGUGAUGUGAGUCGAAACA----
(.(((((............((((((....))---))))...(((((((..((....))------..).))))))))))).)..(((.((((....(((....)))..)))).))).---- ( -39.10)
>DroYak_CAF1 21068 116 + 1
--GAUGCAGGGGCAGUGGGGGGAGUGGCGGCACAUGCCACGCCUACCGCUGCAGCGGCGGAGGCGGUGGGCGAGGGAGCGGAGGUUGUGAUGUAAACAGUGAUGUAAGUGCUAUUAGA--
--..(((....(((((((..((.((((((.....)))))).))..)))))))....)))..((((.(..((......))................(((....))).).))))......-- ( -40.20)
>DroAna_CAF1 24246 106 + 1
--GAUGCCGGGGGAGCGGGGGCAGUGGCGGCACGUGCCACGCCUAUCGCUGCAGC---------GGUGGGCGAGGUAGUGGAGGUUGUGAUGUAAACAGUGAUGUAAGUACAGUU---CC
--.........(((((.......((.(((((.((((((.((((((((((....))---------)))))))).)))).))...))))).))(((.(((....)))...))).)))---)) ( -40.70)
>consensus
__GAUGCAGGGGCAGCGGGGGCAGUGGCGGCACAUGCCACGCCUACCGCUGCAGCGGC______GGUGGGCGUGGGAGCGGAGGUUGUGAUGUAAACAGUGAUGUAAGUGCAAUCA____
....((((...(((((((((((.((((((.....)))))))))).))))))).............((..(((..(.(((....))).)..)))..)).....)))).............. (-27.00 = -26.70 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:48 2006