Locus 624

Sequence ID 2L_DroMel_CAF1
Location 1,835,940 – 1,836,039
Length 99
Max. P 0.746306
window1020

overview

Window 0

Location 1,835,940 – 1,836,039
Length 99
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.80
Mean single sequence MFE -25.60
Consensus MFE -13.02
Energy contribution -13.08
Covariance contribution 0.06
Combinations/Pair 1.25
Mean z-score -1.95
Structure conservation index 0.51
SVM decision value 0.46
SVM RNA-class probability 0.746306
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1835940 99 + 22407834
CAAGAAAAAUACAAAUAAACCGGCCCAAUCCGCAUAAUGUGUGCCCCGA--CAUGCCCCUGUA--------------UAUAUAAG--UACAUAUGCCGCAGUGCAAACAGGGCCAAG
.....................(((((.....((...((((((((.....--.((((....)))--------------)......)--)))))))...)).((....)).)))))... ( -24.00)
>DroSec_CAF1 4146 113 + 1
CAAGAAAAGUACAAAUAAACCGGCCCAAUCCGCAUAAUGUGUGCCCCGA--CAUGCCCCCGUAUUUGUAUAUACGCAUAUAUAAG--UACAUAUGCCGCAGUGCAAACAGGGCCAAG
.....................(((((.....(((((..(((((......--)))))....((((((((((((....)))))))))--))).)))))....((....)).)))))... ( -30.00)
>DroSim_CAF1 4243 113 + 1
CAAGAAAAGUACAAAUAAACCGGCCCAAUCCGCAUAAUGUGUGCCCCGA--CAUGCCCCCGUAUUUGUAUAUACGCAUAUAUAAG--UACAUAUGCCGCAGUGCAAACAGGGCCAAG
.....................(((((.....(((((..(((((......--)))))....((((((((((((....)))))))))--))).)))))....((....)).)))))... ( -30.00)
>DroEre_CAF1 4250 110 + 1
CAAGAAAAGUACAAAUAAACUGGCCCAAUCCGCAUAAUGUGUGCCCCGA--CAUGCCCCUGUAUUUAUAUGUACGCAUUUCCACGCAUACAUAUGCCGC-----AAAGAGGGCCAAG
....................((((((.....(((((.(((((((...((--.((((....((((......)))))))).))...))))))))))))(..-----...).)))))).. ( -31.60)
>DroYak_CAF1 4307 97 + 1
CCAGAAAAGUACAAAUAAACCGGCCCAAUCCGCAUAAUGUGUGCCCCAA--CAUGCCUCCGUAUUUAUGU------------------AUAUAUGCCGCAGUGCAAACAGGGCCAAG
.....................(((((.....((...((((((((.....--.((((....))))....))------------------))))))...)).((....)).)))))... ( -21.40)
>DroAna_CAF1 4243 95 + 1
CAAGAAUAAUACAAAUAAACCUGCUCAAUCCGCAUAAUGUGUGCGCUGGCACAUGUC---GUA--------UACGUA-----------AUAUAAAGCGCAUGGUAAACAGAGGAAAG
...................(((.((....((((.....))((((((((((....)))---(((--------(.....-----------))))..))))))))).....))))).... ( -16.60)
>consensus
CAAGAAAAGUACAAAUAAACCGGCCCAAUCCGCAUAAUGUGUGCCCCGA__CAUGCCCCCGUAUUU_UAU_UACGCAUAUAUAAG__UACAUAUGCCGCAGUGCAAACAGGGCCAAG
.....................(((((.....((((.....)))).................................................(((......)))....)))))... (-13.02 = -13.08 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:16 2006