Locus 5905

Sequence ID 3L_DroMel_CAF1
Location 15,856,875 – 15,856,979
Length 104
Max. P 0.825984
window9415

overview

Window 5

Location 15,856,875 – 15,856,979
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.60
Mean single sequence MFE -35.28
Consensus MFE -16.42
Energy contribution -17.94
Covariance contribution 1.52
Combinations/Pair 1.24
Mean z-score -2.25
Structure conservation index 0.47
SVM decision value 0.70
SVM RNA-class probability 0.825984
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15856875 104 + 23771897
-CGGAAACGG-GGGCAGGGCACAGCAA---GAAC---------GGGGCAGAUAGUUGUUCCACAAGUGCAGUUUUCCUGCCCCUGCCGCU--GCUGCUGUCCAAACAUAAAAAGGAUAAC
-.((...(((-((((((((.((.(((.---....---------(((((((....))))))).....))).))..)))))))))))))((.--...))(((((...........))))).. ( -38.60)
>DroPse_CAF1 62747 118 + 1
GGGGAAAGG--GAGAAGGGGACGGGAAGGGGAAAAGGAUAGAAGCGAAAGAUAGUUGCUGCACAAGUGCAGUUUUCCUGUUGCAGCAGCUUUCCUGCUGGUCAAACAUAAAAAGGAUAAC
.........--.....(..(((.((.(((..(............(....)...(((((((((.....((((.....))))))))))))))..))).)).)))...).............. ( -30.80)
>DroSim_CAF1 65730 105 + 1
-CGGAAACGGGGGGCAGGGCGCAGCGA---GAAC---------GGGGCAGAUAGUUGUUGCACAAGUGCAGUUUUCCUGGCCCUGCCGCU--GCUGCUGUCCAAACAUAAAAAGGAUAAC
-((....))((.((((((((.(((.((---((((---------..(((((....)))))(((....))).))))))))))))))))).))--.....(((((...........))))).. ( -44.20)
>DroEre_CAF1 63805 98 + 1
-CGGAAACGGGGAACAGGGCGCAGCGA---GAAC---------G-GGCAGAUAGUUGUUGCACAAGUGCAGUUUUCC------UGCCGCU--GCUGCUGUCCAAACAUAAAAAGGAUAAC
-((....)).......(((((((((.(---(...---------.-(((((..((...(((((....))))).))..)------)))).))--))))).)))).................. ( -31.70)
>DroYak_CAF1 105464 99 + 1
-AGGAAACGGGAAACAGGGCGCAGCGA---GGAC---------GUGGCAGAUAGUUGUUGCACAAGUGCAGUUUUCC------UGCCGCU--GCUGCUAUCCAAACAUAAAAAGGAUAAC
-.(....).(....).....((((((.---....---------(((((((..((...(((((....))))).))..)------)))))))--)))))(((((...........))))).. ( -31.10)
>consensus
_CGGAAACGGGGAGCAGGGCGCAGCGA___GAAC_________GGGGCAGAUAGUUGUUGCACAAGUGCAGUUUUCCUG___CUGCCGCU__GCUGCUGUCCAAACAUAAAAAGGAUAAC
.((....)).......(((((((((..................(((((((....)))))))...(((((((...........)))).)))..)))).))))).................. (-16.42 = -17.94 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:28 2006