Locus 3153

Sequence ID	3L_DroMel_CAF1
Location	9,167,521 – 9,167,648
Length	127
Max. P	0.852594

overview

Window 7

Location	9,167,521 – 9,167,628
Length	107
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	84.32
Mean single sequence MFE	-13.33
Consensus MFE	-10.70
Energy contribution	-10.45
Covariance contribution	-0.25
Combinations/Pair	1.06
Mean z-score	-1.55
Structure conservation index	0.80
SVM decision value	0.01
SVM RNA-class probability	0.536726
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9167521 107 - 23771897
AUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUUGACGCAGCUUUGCCACCACUUUUCCAGCACCUCUCCCAUUCC
.....................((((....................((((((((....))))))))...((......)).............))))............ ( -13.00)
>DroPse_CAF1 25160 96 - 1
AUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUCGACGCAGCUUUGGCUCCACUCCUCAAUCCCC-----------
.......................((((((((((....))))...(((((((((....))))))))).......)))))).................----------- ( -15.90)
>DroEre_CAF1 35192 103 - 1
AUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUUGACGCAGCUUUGCCACCACUUUUCCAGGCCC----CAUCUCC
...................(((.(((...................((((((((....))))))))...((......)).............)))..----))).... ( -13.00)
>DroYak_CAF1 36771 95 - 1
AUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUUGACGCAGCUUUGCCACCCCU--------CCC----UCCCUCC
.................((((((..................))))))((((((....)))))).....((......)).......--------...----....... ( -10.37)
>DroAna_CAF1 24368 86 - 1
AUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUCGACGCAGCUUUCCCCCCAUAC---------------------
....................((((.(...((((....))))....((((((((....))))))))).))))...............--------------------- ( -11.80)
>DroPer_CAF1 25135 96 - 1
AUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUCGACGCAGCUUUGGCUCCACUCCUCAAUCCCC-----------
.......................((((((((((....))))...(((((((((....))))))))).......)))))).................----------- ( -15.90)
>consensus
AUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUCGACGCAGCUUUGCCACCACUC_UC_A_CCCC___________
....................((((.(...((((....))))....((((((((....))))))))).)))).................................... (-10.70 = -10.45 +  -0.25)

alignment

secondary structure

dotplot

Window 8

Location	9,167,548 – 9,167,648
Length	100
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	85.65
Mean single sequence MFE	-26.48
Consensus MFE	-21.75
Energy contribution	-22.00
Covariance contribution	0.25
Combinations/Pair	1.12
Mean z-score	-2.37
Structure conservation index	0.82
SVM decision value	0.79
SVM RNA-class probability	0.852594
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9167548 100 - 23771897
UUGCC---GG------------CGCUGCCAGCGGUAUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUUGACGCAGCUUUGCCA
.....---((------------((((((....((((((((((......))))...))))))...................((((((((....))))))))...)))))...))). ( -25.20)
>DroPse_CAF1 25176 109 - 1
UUGCU---GUUGGUUUUG---CUGUUGCGAGCGGCAUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUCGACGCAGCUUUGGCU
.((((---((((((((((---(....))))..((((((((((......))))...))))))..........))))))))(((((((((....)))))))))..)))((....)). ( -28.30)
>DroEre_CAF1 35215 100 - 1
UUGCC---AG------------CGCUGGCAGCGGCAUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUUGACGCAGCUUUGCCA
.((((---(.------------...)))))((((((((((((......))))...))))))...................((((((((....))))))))...)).......... ( -23.90)
>DroWil_CAF1 31814 115 - 1
CUGCUGCUUCUGGUUCUGCUGCUGUUGUGAGCGGCAUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCACGACUCAGCUUUUGCU
..((((..((..(((((((((((......)))))))....(((((......(((((((..................)))))))......)))))))))..))..))))....... ( -26.77)
>DroAna_CAF1 24374 100 - 1
UUGCC---UU------------CGUUGCGAGCGGCAUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUCGACGCAGCUUUCCCC
.....---..------------.((((((...((((((((((......))))...))))))..................(((((((((....))))))))).))))))....... ( -26.40)
>DroPer_CAF1 25151 109 - 1
UUGCU---GUUGGUUUUG---CUGUUGCGAGCGGCAUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUCGACGCAGCUUUGGCU
.((((---((((((((((---(....))))..((((((((((......))))...))))))..........))))))))(((((((((....)))))))))..)))((....)). ( -28.30)
>consensus
UUGCC___GU____________CGUUGCGAGCGGCAUAAAUUAAUAAAAAUUUCAUGUGCCAAAUAAUUACAAUUAACAUGAGUUCUUAAUUAAGAGCUCGACGCAGCUUUGCCU
.......................((((((...((((((((((......))))...))))))..................(((((((((....))))))))).))))))....... (-21.75 = -22.00 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:51 2006