Locus 2923

Sequence ID	3L_DroMel_CAF1
Location	8,364,472 – 8,364,612
Length	140
Max. P	0.969684

overview

Window 1

Location	8,364,472 – 8,364,580
Length	108
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	90.95
Mean single sequence MFE	-34.25
Consensus MFE	-31.84
Energy contribution	-32.34
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.68
Structure conservation index	0.93
SVM decision value	1.65
SVM RNA-class probability	0.969684
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8364472 108 - 23771897
CCCAGUGGCUCAAUUGACAAACAUCACUGGCUCAAAGGGAAUCUGGGAAAACCCCCUUUGAUAGCAAGGUGGCAAUUGGGCGUGGCAAGGGCGCAGCUAAGGUCAUAA
.......(((((((((.....((((....((((((((((.....((.....))))))))))..))..)))).)))))))))(((((...(((...)))...))))).. ( -35.60)
>DroPse_CAF1 865 99 - 1
UCCAGUGGCUCAAUUGACAAACAUCACUGGCUCAAAGGGG-----GG----AGCCCUUUGAUAGCAAGGUGGCAAUUGGGCGUGGCAAGGGCGCAGCUAAAAUCAUAA
...(((.(((((((((.....((((....((((((((((.-----..----..))))))))..))..)))).)))))))))(((.(...).))).))).......... ( -31.30)
>DroSec_CAF1 887 107 - 1
CCCAGUGGCUCAAUUGACAAACAUCACUGGCUCAAAGGGGAUCUGGGA-AACCCCCUUUGAUAGCAAGGUGGCAAUUGGGCGUGGCAAGGGCGCAGCUAAGGUCAUAA
.......(((((((((.....((((....(((((((((((.....(..-..))))))))))..))..)))).)))))))))(((((...(((...)))...))))).. ( -38.60)
>DroEre_CAF1 920 107 - 1
CCCAGUGGCUCAAUUGACAAACAUCACUGGCUCAAAGGGGAUCUGGAA-AACCCCCUUUGAUAGCAAGGUGGCAAUUAGGCGUGGCAAGGGCACAGCUAAGGUCAUAA
.......((..(((((.....((((....(((((((((((........-...)))))))))..))..)))).)))))..))(((((...(((...)))...))))).. ( -32.70)
>DroYak_CAF1 1273 107 - 1
CCCAGUGGCUCAAUUGACAAACAUCACUGGCUCAAAGGGCAUCGGGAU-GACCCCCUUUGAUAGCAAGGUGGCAAUUGGGCGUGGCAAGGGCGCAGCUAAGGUCAUAA
.......(((((((((.....((((....((((((((((....((...-..))))))))))..))..)))).)))))))))(((((...(((...)))...))))).. ( -36.00)
>DroPer_CAF1 865 99 - 1
UCCAGUGGCUCAAUUGACAAACAUCACUGGCUCAAAGGGG-----GG----AGCCCUUUGAUAGCAAGGUGGCAAUUGGGCGUGGCAAGGGCGCAGCUAAAAUCAUAA
...(((.(((((((((.....((((....((((((((((.-----..----..))))))))..))..)))).)))))))))(((.(...).))).))).......... ( -31.30)
>consensus
CCCAGUGGCUCAAUUGACAAACAUCACUGGCUCAAAGGGGAUCUGGGA_AACCCCCUUUGAUAGCAAGGUGGCAAUUGGGCGUGGCAAGGGCGCAGCUAAGGUCAUAA
.......(((((((((.....((((....((((((((((..............))))))))..))..)))).)))))))))(((((...(((...)))...))))).. (-31.84 = -32.34 +   0.50)

alignment

secondary structure

dotplot

Window 2

Location	8,364,507 – 8,364,612
Length	105
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	79.30
Mean single sequence MFE	-27.48
Consensus MFE	-18.19
Energy contribution	-18.44
Covariance contribution	0.25
Combinations/Pair	1.05
Mean z-score	-1.67
Structure conservation index	0.66
SVM decision value	0.61
SVM RNA-class probability	0.797986
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8364507 105 + 23771897
GCCACCUUGCUAUCAAAGGGGGUUUUCCCAGAU----UCCCUUUGAGCCAGUGAUGUUUGUCAAUUGA--GCCACUGGGCACAACCCCAAU--CCACAUAUGACACCACACGC
(((.....((..((((((((((((......)))----)))))))))))(((((..(((((.....)))--))))))))))...........--.................... ( -28.20)
>DroPse_CAF1 900 98 + 1
GCCACCUUGCUAUCAAAGGGCU----CC---------CCCCUUUGAGCCAGUGAUGUUUGUCAAUUGA--GCCACUGGACGCAUCCCUAAAAGUCCCAUAUCCCCCCUGCCCC
.......(((..((((((((..----..---------.))))))))(((((((..(((((.....)))--)))))))).)))).............................. ( -23.50)
>DroSec_CAF1 922 104 + 1
GCCACCUUGCUAUCAAAGGGGGUU-UCCCAGAU----CCCCUUUGAGCCAGUGAUGUUUGUCAAUUGA--GCCACUGGGCACAACCCCAAU--CCACAUAUGACACCACACGC
(((.....((..((((((((((((-.....)))----)))))))))))(((((..(((((.....)))--))))))))))...........--.................... ( -30.80)
>DroYak_CAF1 1308 104 + 1
GCCACCUUGCUAUCAAAGGGGGUC-AUCCCGAU----GCCCUUUGAGCCAGUGAUGUUUGUCAAUUGA--GCCACUGGGCACAACCCUAAU--CCACAUCUAACACCACACGC
(((.....((..((((((((.(((-.....)))----.))))))))))(((((..(((((.....)))--))))))))))...........--.................... ( -29.00)
>DroAna_CAF1 906 103 + 1
GCCGCCUUGCUAUCAAAGGCGGUCCAACCCGUUGAGCCCCCUUUGAGCCAGUGAUGUUUGUCAAUUGAGUGCCACUGGGCGCAUCCCUAAG--CCACAU------CCACAC--
........((..(((((((.((..(((....)))..)).)))))))))..(((((((..((.....(((((((....))))).)).....)--).))))------.)))..-- ( -29.90)
>DroPer_CAF1 900 98 + 1
GCCACCUUGCUAUCAAAGGGCU----CC---------CCCCUUUGAGCCAGUGAUGUUUGUCAAUUGA--GCCACUGGACGCAUCCCUAAAAGUCCCAUAUCCCCCCUGCCCC
.......(((..((((((((..----..---------.))))))))(((((((..(((((.....)))--)))))))).)))).............................. ( -23.50)
>consensus
GCCACCUUGCUAUCAAAGGGGGU___CCC_GAU____CCCCUUUGAGCCAGUGAUGUUUGUCAAUUGA__GCCACUGGGCACAACCCUAAU__CCACAUAUCACACCACACGC
.......(((..((((((((..................)))))))).((((((..((...((....))..)))))))))))................................ (-18.19 = -18.44 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:06 2006