Locus 777

Sequence ID 3L_DroMel_CAF1
Location 2,330,245 – 2,330,352
Length 107
Max. P 0.939739
window1196

overview

Window 6

Location 2,330,245 – 2,330,352
Length 107
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 79.07
Mean single sequence MFE -27.17
Consensus MFE -18.74
Energy contribution -21.35
Covariance contribution 2.61
Combinations/Pair 1.11
Mean z-score -2.15
Structure conservation index 0.69
SVM decision value 1.28
SVM RNA-class probability 0.939739
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2330245 107 + 23771897
--GCUUGCGGCACUCAUAAACACAUUUUAUCGAAGGCAGUUAGGCCAAAAAAAAAAACAUAGAAAUGGCCCAAACUUUGGCCAUUAUUCGAACGUGCUGCGACU--GGAAA
--..(((((((((...((((.....))))((((((((......))).................(((((((........))))))).)))))..)))))))))..--..... ( -31.50)
>DroSec_CAF1 79459 82 + 1
--GCUUGCGGCACUCAUAAACACAUUUUAUCGAAGGCAGUUAGGCC-------------------------AAACUUUGGCCAUUAUUCGAACGUGCUGCGACU--GGAAA
--..(((((((((...((((.....))))(((((...(((..((((-------------------------(.....)))))))).)))))..)))))))))..--..... ( -23.60)
>DroEre_CAF1 84697 101 + 1
--GAUUGCGGCACUCAUAAACACAUUUUAUCGAAGGCAGUUAGGCCAAA------AACAUAGCGAUGGCCCAAACUUUGGCCAUUAUUCGAACGUGCUGCGACU--GGAGA
--..(((((((((...((((.....))))((((((((......)))...------........(((((((........))))))).)))))..)))))))))..--..... ( -32.10)
>DroYak_CAF1 82228 101 + 1
--GCUUGCGGCACUCAUAAACACAUUUUAUCGAAGGCAGUUAGGCCAAG------AACAUAGAAAUGGCCCAAACUUUGGCCAUUAUUCGAACGUGCUGCCACU--GAAAA
--....(((((((...((((.....))))((((((((......)))...------........(((((((........))))))).)))))..)))))))....--..... ( -29.50)
>DroAna_CAF1 77053 102 + 1
--GCUUGCGGCACCUAUAAACACAUUUUAUCGAAGGCA-UUAAGCCAGUAU----AACGAAAAAAUGGCUCAAACUUUGGCCAUUAUUAGAACGUGCUGCGCCU--GCGAA
--((.((((((((.....................(((.-....))).....----........(((((((........)))))))........))))))))...--))... ( -27.20)
>DroPer_CAF1 103651 102 + 1
AGGCUC---GCUCUCAUAAACACAUUUUAUCGAAAGCAGUUAAGGCGCACA------AAAAAAAAUGGCUAAAACUUUGGCAAUUAUUGGAACGUGCUGCGACUUCGGAAC
.((((.---(((.(((((((.....))))).)).)))))))...((((((.------...((.(((.(((((....))))).))).)).....)))).))..(....)... ( -19.10)
>consensus
__GCUUGCGGCACUCAUAAACACAUUUUAUCGAAGGCAGUUAGGCCAAA______AACAUAGAAAUGGCCCAAACUUUGGCCAUUAUUCGAACGUGCUGCGACU__GGAAA
....(((((((((...((((.....))))((((((((......))).................(((((((........))))))).)))))..)))))))))......... (-18.74 = -21.35 +   2.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:56 2006