Locus 1986

Sequence ID	3L_DroMel_CAF1
Location	5,460,998 – 5,461,093
Length	95
Max. P	0.999661

overview

Window 0

Location	5,460,998 – 5,461,093
Length	95
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	95.18
Mean single sequence MFE	-19.67
Consensus MFE	-18.32
Energy contribution	-18.88
Covariance contribution	0.56
Combinations/Pair	1.04
Mean z-score	-1.19
Structure conservation index	0.93
SVM decision value	0.42
SVM RNA-class probability	0.729411
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5460998 95 + 23771897
UU-UUGGUGCUUUAAGAAAUUCCAAUUGCUAAAAGUUGGCGAAUUGUAAAUUUUGUUAUUACAAGCCAGGCCAACUCUCCCACAAUUGGCUUUCUU
..-..........((((((..(((((((.....(((((((...((((((.........)))))).....)))))))......))))))).)))))) ( -22.90)
>DroSec_CAF1 22442 95 + 1
UU-UUUGUGCUUUAAGAAAUUUCAAUUGCGAAAAGUUGGCGAAUUGUAAAUUUUGUUAUUACACGCCAGGCCAAAGCUCCCACAAUUGGCUUUCUU
..-..........((((((..(((((((.(......(((((...(((((.........))))))))))(((....)))..).))))))).)))))) ( -18.20)
>DroSim_CAF1 23887 96 + 1
UUUUUUGUGCUUUAAGAAAUUUCAAUUGCUAAAAGUUGGCGAAUUGUAAAUUUUGUUAUUACAAGCCAGGCCAACGCUCCCACAAUUGGCUUUCUU
.............((((((..(((((((......((((((...((((((.........)))))).....)))))).......))))))).)))))) ( -19.92)
>DroEre_CAF1 22089 94 + 1
UC-UUAGUGCUUUAAGAAAUUCCAA-UGCUAAAAGUUGGCGAAUUGUAAAUUUUGUUAUUACAAGCCAGGCCAACGCUCCCACAAUUGGCUUUCUU
..-..........((((((..((((-(.......((((((...((((((.........)))))).....)))))).........))))).)))))) ( -19.09)
>DroYak_CAF1 9258 95 + 1
UU-UUGGUGCUUUAAGAAAUUCAAAUUGCUAAAAGUUGGCGAAUUGUAAAUUUUGUUAUUACAAGCCAGGCCAACGCUCCCACAAUUGGCUUUCUU
..-..........((((((..(((.(((......((((((...((((((.........)))))).....)))))).......))))))..)))))) ( -18.22)
>consensus
UU_UUGGUGCUUUAAGAAAUUCCAAUUGCUAAAAGUUGGCGAAUUGUAAAUUUUGUUAUUACAAGCCAGGCCAACGCUCCCACAAUUGGCUUUCUU
.............((((((..(((((((......((((((...((((((.........)))))).....)))))).......))))))).)))))) (-18.32 = -18.88 +   0.56)

alignment

secondary structure

dotplot

Window 1

Location	5,460,998 – 5,461,093
Length	95
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	95.18
Mean single sequence MFE	-26.10
Consensus MFE	-22.50
Energy contribution	-23.30
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-3.57
Structure conservation index	0.86
SVM decision value	3.85
SVM RNA-class probability	0.999661
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5460998 95 - 23771897
AAGAAAGCCAAUUGUGGGAGAGUUGGCCUGGCUUGUAAUAACAAAAUUUACAAUUCGCCAACUUUUAGCAAUUGGAAUUUCUUAAAGCACCAA-AA
((((((.((((((((..((((((((((..(..((((((.........))))))..))))))))))).))))))))..))))))..........-.. ( -32.30)
>DroSec_CAF1 22442 95 - 1
AAGAAAGCCAAUUGUGGGAGCUUUGGCCUGGCGUGUAAUAACAAAAUUUACAAUUCGCCAACUUUUCGCAAUUGAAAUUUCUUAAAGCACAAA-AA
((((((..((((((((..(((....)).((((((((((.........)))))...)))))...)..))))))))...))))))..........-.. ( -25.60)
>DroSim_CAF1 23887 96 - 1
AAGAAAGCCAAUUGUGGGAGCGUUGGCCUGGCUUGUAAUAACAAAAUUUACAAUUCGCCAACUUUUAGCAAUUGAAAUUUCUUAAAGCACAAAAAA
((((((..(((((((..(((.((((((..(..((((((.........))))))..))))))))))..)))))))...))))))............. ( -25.70)
>DroEre_CAF1 22089 94 - 1
AAGAAAGCCAAUUGUGGGAGCGUUGGCCUGGCUUGUAAUAACAAAAUUUACAAUUCGCCAACUUUUAGCA-UUGGAAUUUCUUAAAGCACUAA-GA
((((((.(((((.((..(((.((((((..(..((((((.........))))))..))))))))))..)))-))))..))))))..........-.. ( -23.70)
>DroYak_CAF1 9258 95 - 1
AAGAAAGCCAAUUGUGGGAGCGUUGGCCUGGCUUGUAAUAACAAAAUUUACAAUUCGCCAACUUUUAGCAAUUUGAAUUUCUUAAAGCACCAA-AA
((((((..(((((((..(((.((((((..(..((((((.........))))))..))))))))))..)))).)))..))))))..........-.. ( -23.20)
>consensus
AAGAAAGCCAAUUGUGGGAGCGUUGGCCUGGCUUGUAAUAACAAAAUUUACAAUUCGCCAACUUUUAGCAAUUGGAAUUUCUUAAAGCACAAA_AA
((((((..(((((((..(((.((((((..((.((((((.........)))))).)))))))))))..)))))))...))))))............. (-22.50 = -23.30 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:50 2006