Locus 5898

Sequence ID 3L_DroMel_CAF1
Location 15,844,342 – 15,844,487
Length 145
Max. P 0.880613
window9401 window9402

overview

Window 1

Location 15,844,342 – 15,844,447
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 69.09
Mean single sequence MFE -17.10
Consensus MFE -11.82
Energy contribution -11.38
Covariance contribution -0.44
Combinations/Pair 1.30
Mean z-score -1.12
Structure conservation index 0.69
SVM decision value 0.49
SVM RNA-class probability 0.757120
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15844342 105 + 23771897
-AAUAUU--------------UGUUUUACUCAUUUUUACCUUAUUGAUUUAAGAACAUAUUCAGUAUUUUCUCUUCCUGUAAGGUACUUCGUGUUUGUGCUUUGCAUUUUUUAUAGCCAG
-......--------------....................((((((.............))))))...........((((((((((.........)))))))))).............. ( -13.12)
>DroSec_CAF1 51436 105 + 1
-AAUAUU--------------UCUUUUACCCAUUUUAACCUAAAUGAUUUUAACAAAUAUUCAGUAUUUUCUCUUCCUGUAAGGCACUUCGUAUUUGUGCUUUGCAUUUUUUAUGGCCAG
-((((((--------------(.((.....(((((......))))).....)).)))))))................((((((((((.........)))))))))).............. ( -15.60)
>DroSim_CAF1 52657 105 + 1
-AAUAUU--------------UCUUUUACCCAUUUUAACCUUAAUGAUUUUGAGAAAUAUUCUGUAUUUUCUCUUCCUGUAAGGCACUUCGUAUUUGUGCUUUGCAUUUUUUAUGGCCAG
-((((((--------------((((.....((((........)))).....))))))))))................((((((((((.........)))))))))).............. ( -21.10)
>DroEre_CAF1 50560 115 + 1
AAAUAUUCAGCUUUCCAAAUUCGUUGAACUCAGUCUAACCGCAA----UUUAAUAAUUGUGCACACUUUUCUCUUCGUGUAGAGCACUGCUUGUUCGUGCUUUGCAUUUU-UAUGUUCCG
.....((((((...........))))))...........(((((----((....)))))))...............(((((((((((.........)))))))))))...-......... ( -22.00)
>DroYak_CAF1 92834 110 + 1
AAAUGUUCAGGUUUCUAAAUU---------UAGUUUAAUUGCAAUAAUUUUAAUAACUAUUCAGACUUUU-UCUUUCUGUAGAGCUCUGCUUGUUCGUGCUUUGCAUUUUGUAUGCCCUG
.......((((..........---------..........(((..................((((.....-....))))..((((.......)))).)))...((((.....)))))))) ( -13.70)
>consensus
_AAUAUU______________UCUUUUACCCAUUUUAACCUCAAUGAUUUUAAUAAAUAUUCAGUAUUUUCUCUUCCUGUAAGGCACUUCGUGUUUGUGCUUUGCAUUUUUUAUGGCCAG
.............................................................................((((((((((.........)))))))))).............. (-11.82 = -11.38 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,844,367 – 15,844,487
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.50
Mean single sequence MFE -22.78
Consensus MFE -16.72
Energy contribution -18.12
Covariance contribution 1.40
Combinations/Pair 1.14
Mean z-score -2.04
Structure conservation index 0.73
SVM decision value 0.91
SVM RNA-class probability 0.880613
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15844367 120 + 23771897
UUAUUGAUUUAAGAACAUAUUCAGUAUUUUCUCUUCCUGUAAGGUACUUCGUGUUUGUGCUUUGCAUUUUUUAUAGCCAGUACUUUAUUUUUAUGUAUUUUCCGUAUGAGAUUCUUUGAA
...................(((((.....((((....((((((((((.........)))))))))).....((..(..(((((...........)))))..)..)).))))....))))) ( -18.20)
>DroSec_CAF1 51461 120 + 1
UAAAUGAUUUUAACAAAUAUUCAGUAUUUUCUCUUCCUGUAAGGCACUUCGUAUUUGUGCUUUGCAUUUUUUAUGGCCAGUACUUUAUUUUUAUGUAUUUUCCGUAUGAGAUUCUUUGAA
...................(((((.....((((....((((((((((.........)))))))))).....(((((..(((((...........)))))..))))).))))....))))) ( -25.80)
>DroSim_CAF1 52682 120 + 1
UUAAUGAUUUUGAGAAAUAUUCUGUAUUUUCUCUUCCUGUAAGGCACUUCGUAUUUGUGCUUUGCAUUUUUUAUGGCCAGUACUUUAUUUUUAUGUAUUUUCCGUAUGAGAUUUUUUGAA
((((.((((((((((((..........))))))....((((((((((.........)))))))))).....(((((..(((((...........)))))..))))).))))))..)))). ( -25.70)
>DroEre_CAF1 50600 115 + 1
GCAA----UUUAAUAAUUGUGCACACUUUUCUCUUCGUGUAGAGCACUGCUUGUUCGUGCUUUGCAUUUU-UAUGUUCCGUACUUUAUUUUUUAGUAUUUCCCGUGUGAGAUUCUUUGAA
((((----((....)))))).(((((..........(((((((((((.........)))))))))))...-........(((((.........))))).....)))))............ ( -24.60)
>DroYak_CAF1 92865 119 + 1
GCAAUAAUUUUAAUAACUAUUCAGACUUUU-UCUUUCUGUAGAGCUCUGCUUGUUCGUGCUUUGCAUUUUGUAUGCCCUGUACUUUAUUUUUAAGAAUUUCCCGUAUGAGAUUCUUUGAA
.....................((((.....-....))))..((((.......))))((((...((((.....))))...)))).....(((.(((((((((......))))))))).))) ( -19.60)
>consensus
UCAAUGAUUUUAAUAAAUAUUCAGUAUUUUCUCUUCCUGUAAGGCACUUCGUGUUUGUGCUUUGCAUUUUUUAUGGCCAGUACUUUAUUUUUAUGUAUUUUCCGUAUGAGAUUCUUUGAA
...................(((((.....((((....((((((((((.........)))))))))).....(((((..(((((...........)))))..))))).))))....))))) (-16.72 = -18.12 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:16 2006