Locus 8601

Sequence ID X_DroMel_CAF1
Location 21,368,285 – 21,368,378
Length 93
Max. P 0.590382
window14141

overview

Window 1

Location 21,368,285 – 21,368,378
Length 93
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 80.34
Mean single sequence MFE -33.49
Consensus MFE -23.87
Energy contribution -26.40
Covariance contribution 2.53
Combinations/Pair 1.04
Mean z-score -1.23
Structure conservation index 0.71
SVM decision value 0.11
SVM RNA-class probability 0.590382
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21368285 93 + 22224390
AACGCUCACUGACGCAGUUCUGGCAGAUUGUUUGGCUUAACUGUGGCGCGAA--GUGCCACCCA--------CUCUGCCACCAAAGUGGGCGCCCGGA-----UGGUG
...(((((((((......))(((((((..(((......))).(((((((...--)))))))...--------.)))))))....)))))))(((....-----.))). ( -32.00)
>DroSec_CAF1 12378 93 + 1
AACGCUCACUGACGCAGUUCUGGCAGAUUGUUUGGCUUAACUGUGGCGCGAA--GUGCCACCCA--------CUCUGCCAGCAAAGUGGGCGCCCGGA-----UGGUG
...(((((((...((.....(((((((..(((......))).(((((((...--)))))))...--------.)))))))))..)))))))(((....-----.))). ( -34.60)
>DroSim_CAF1 12539 93 + 1
AACGCUCACUGACGCAGUUCUGGCAGAUUGUUUGGCUUAACUGUGGCGCGAA--GUGCCACCCA--------CUCUGCCAGCAAAGUGGGCGCCCGGA-----UGGUG
...(((((((...((.....(((((((..(((......))).(((((((...--)))))))...--------.)))))))))..)))))))(((....-----.))). ( -34.60)
>DroEre_CAF1 4234 93 + 1
AACGCUCACUGACGCAGUUCUGGCAGAUUGUUUGGUUUAACUGUGGCGCCAA--GUGCCACCCA--------CUCUGCCACCAAAGCGGGCGCAAGGA-----UGGUG
..((((..((..(((.....(((((((.((...((.....))(((((((...--))))))).))--------.)))))))((.....)))))..))..-----.)))) ( -30.80)
>DroYak_CAF1 3920 103 + 1
AACGCUCACUGACGCAGUUCUGGCAGAUUGUUUGGUUUAACUGUGGCGCGAACUGUGCCACCCAGCAAAAUGCUCCACCAGCAAAGUGGGCGAAAGGA-----UGGAG
..((((((((...((......((((..(((((.((.......(((((((.....))))))))))))))..))))......))..))))))))......-----..... ( -35.11)
>DroAna_CAF1 10298 86 + 1
AAGGCU-----------UCCUGGCAGAUUGUUUGGUUUAACUGUGGCGCGGA--AUGCCAGUCA--------GUCAGUGAGGAUAGAGGAGGG-AGGAGAACCUCCUC
......-----------((((.((.(((((.(((((....(((.....))).--..))))).))--------))).)).))))..(((((((.-.......))))))) ( -33.80)
>consensus
AACGCUCACUGACGCAGUUCUGGCAGAUUGUUUGGCUUAACUGUGGCGCGAA__GUGCCACCCA________CUCUGCCAGCAAAGUGGGCGCCAGGA_____UGGUG
..((((((((.........((((((((..(((......))).(((((((.....)))))))............))))))))...))))))))................ (-23.87 = -26.40 +   2.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:12 2006