Locus 4431

Sequence ID	3L_DroMel_CAF1
Location	12,936,903 – 12,937,046
Length	143
Max. P	0.921514

overview

Window 0

Location	12,936,903 – 12,937,006
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	96.12
Mean single sequence MFE	-23.18
Consensus MFE	-20.74
Energy contribution	-21.02
Covariance contribution	0.28
Combinations/Pair	1.09
Mean z-score	-1.54
Structure conservation index	0.89
SVM decision value	1.14
SVM RNA-class probability	0.921514
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12936903 103 - 23771897
CCCUAAUCCCAGGCUAUCAGCAUUUUUGCUCAUUCCAGCGAUUAUAUGGGCUAAUUGUAAUCGGUCAUCUUUAGUUUUGCUAAGCCUUUCCAGCUGACAGCUU
..........(((((.(((((......(((......)))(((((((.........)))))))((.....(((((.....))))).....)).))))).))))) ( -24.20)
>DroSec_CAF1 53408 103 - 1
CCCUAAUCCCAGGCUAUCAGCAUUUUUGCUCAUUCCAGCGAUUAUAUGGGCUAAUUGUAAUCGGUCAUCUUUAGUUUUGCUAAGCCUUUCCAGUUGACAGCUU
..........(((((.(((((......(((......)))(((((((.........)))))))((.....(((((.....))))).....)).))))).))))) ( -21.80)
>DroSim_CAF1 57569 103 - 1
CCCUAAUCCCAGGCUAUCAGCAUUUUUGCUCAUUCCAGCGAUUAUAUGGGCUAAUUGUAAUCGGUCAUCUUUAGUUUUGCUAAGCCUUUCCAGCUGACAGCUU
..........(((((.(((((......(((......)))(((((((.........)))))))((.....(((((.....))))).....)).))))).))))) ( -24.20)
>DroEre_CAF1 59228 103 - 1
CCCUAAUCCCGGGCUUUCAGCAUUUUUGCUCAUUCCAACGAUUAUAUGGGCUAAUUGUGAUCGGUCAUCUUUAGUUUGGGUAAGCCUUUCCAGCUGACAGCUU
..........(((((.(((((......((((((............))))))....((.((..(((.((((.......))))..)))..))))))))).))))) ( -24.40)
>DroYak_CAF1 56739 103 - 1
CCCUAAUUCCACGCUAACAGCAUUUUUGCUCAUUCCAGCGAUUAUAUGGGCUAAUUGUAAUCGGUCAUCUUUAGUUUUGCUAAGCCUUUCCAGCUGACAGCUU
............(((...((((....)))).....(((((((((((.........)))))))((.....(((((.....))))).....)).))))..))).. ( -21.30)
>consensus
CCCUAAUCCCAGGCUAUCAGCAUUUUUGCUCAUUCCAGCGAUUAUAUGGGCUAAUUGUAAUCGGUCAUCUUUAGUUUUGCUAAGCCUUUCCAGCUGACAGCUU
..........(((((.(((((......((((((............))))))...........((.....(((((.....))))).....)).))))).))))) (-20.74 = -21.02 +   0.28)

alignment

secondary structure

dotplot

Window 1

Location	12,936,933 – 12,937,046
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	93.63
Mean single sequence MFE	-24.54
Consensus MFE	-20.22
Energy contribution	-21.06
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.47
Structure conservation index	0.82
SVM decision value	0.36
SVM RNA-class probability	0.703437
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12936933 113 + 23771897
UAAAGAUGACCGAUUACAAUUAGCCCAUAUAAUCGCUGGAAUGAGCAAAAAUGCUGAUAGCCUGGGAUUAGGGUUUUAGUUUCUAAGAAAUAAAUUGGCCAGUCAACAAAAAU
....(((..((((((......(((((...(((((.(.((.((.((((....)))).))..)).).))))))))))...(((((...))))).))))))...)))......... ( -25.60)
>DroSec_CAF1 53438 113 + 1
UAAAGAUGACCGAUUACAAUUAGCCCAUAUAAUCGCUGGAAUGAGCAAAAAUGCUGAUAGCCUGGGAUUAGGGUUUUAGUUUCUAUGAAAUAAAUUGGCUAGUCAACAAAAAU
....(((..((((((......(((((...(((((.(.((.((.((((....)))).))..)).).))))))))))...(((((...))))).))))))...)))......... ( -25.60)
>DroSim_CAF1 57599 113 + 1
UAAAGAUGACCGAUUACAAUUAGCCCAUAUAAUCGCUGGAAUGAGCAAAAAUGCUGAUAGCCUGGGAUUAGGGUUUUAGUUUCUAAGAAAUAAAUUGGCUAGUCAACAAAAAU
....(((..((((((......(((((...(((((.(.((.((.((((....)))).))..)).).))))))))))...(((((...))))).))))))...)))......... ( -25.60)
>DroEre_CAF1 59258 113 + 1
UAAAGAUGACCGAUCACAAUUAGCCCAUAUAAUCGUUGGAAUGAGCAAAAAUGCUGAAAGCCCGGGAUUAGGGUUUCAGUUUCUAAGAAAUAAAUUGGCUAGUCGAUUAAAAC
...........((((...(((((((.......((.((((((...........(((((((.(((.......))))))))))))))))))........))))))).))))..... ( -24.06)
>DroYak_CAF1 56769 113 + 1
UAAAGAUGACCGAUUACAAUUAGCCCAUAUAAUCGCUGGAAUGAGCAAAAAUGCUGUUAGCGUGGAAUUAGGGUUUCAGUUUCUAAGAAAUAAAUUGGCUUGGCGAUAAAAAC
......((.((((...((((((((((.......((((((....((((....)))).))))))........)))))...(((((...))))).)))))..))))))........ ( -21.86)
>consensus
UAAAGAUGACCGAUUACAAUUAGCCCAUAUAAUCGCUGGAAUGAGCAAAAAUGCUGAUAGCCUGGGAUUAGGGUUUUAGUUUCUAAGAAAUAAAUUGGCUAGUCAACAAAAAU
....(((..((((((......(((((...(((((.(.((..(.((((....)))).)...)).).))))))))))...(((((...))))).))))))...)))......... (-20.22 = -21.06 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:28 2006