Locus 2031

Sequence ID	3L_DroMel_CAF1
Location	5,594,368 – 5,594,518
Length	150
Max. P	0.604956

overview

Window 3

Location	5,594,368 – 5,594,478
Length	110
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	75.02
Mean single sequence MFE	-24.64
Consensus MFE	-11.34
Energy contribution	-13.37
Covariance contribution	2.03
Combinations/Pair	1.30
Mean z-score	-1.86
Structure conservation index	0.46
SVM decision value	0.14
SVM RNA-class probability	0.604956
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5594368 110 + 23771897
CCU-UAAGGGUAACAUCAUUGCUUAUCAAACAGAUGUCCUGGCAUUUACAUAGCUCCAACAUAACAAAUUACGCGUACACAGGAUGGAGGUAUCCAUCCUUCCUGUUGCUC
...-...((((((((.....(((........((((((....))))))....)))..........................((((((((....))))))))...)))))))) ( -25.20)
>DroSec_CAF1 13680 107 + 1
CCU-UAAGGGUAAC---AUUGAUUAUCAAACAGAUGUCCUGACAUUUACAUAGCCCCAACAAAACAAAUUACGCUUAUUCAGGAUGGAGGUAUCCAUCCUUCCUGUUGCUC
...-...(((((((---(.............((((((....)))))).................................((((((((....))))))))...)))))))) ( -23.60)
>DroSim_CAF1 13297 101 + 1
CAU-UACA---------GUUGCUUAUCAAACAGAUGUCCUGUCAUUUACAUAGCCCCAACAAAACAAAUUACGCUUACUCAGGAUGGAGGUAUCCAUCCUUCCUGUUCCUC
...-.(((---------(..(((......((((.....)))).........)))..........................((((((((....))))))))..))))..... ( -18.06)
>DroEre_CAF1 14861 107 + 1
CCG-UGAGGGUAAC---AUGGCUUGUCAAACAGAUGUCCCGGCAUUUACAUAGCCCCAAAAUAACAAAUUACGUUUGCUCAGGAUGGAGGUAUCCAUCCAUCCUGUUGCUC
((.-...)).....---..(((((((.....((((((....))))))))).)))).....................((.(((((((((((...)).)))))))))..)).. ( -32.00)
>DroYak_CAF1 12863 108 + 1
CCUUUGGGGGUAAC---UUGUCUCAUCAAACAGAUGUCCUGGCAUUUACAUAGCCCCAAAAUAACAAAUUACGCUUACUCAGGAUGGAGGUAUCCAUCCUUCCUGUUGCUC
..(((((((((((.---.((((.((((.....))))....)))).))))....)))))))............((..((..((((((((....))))))))....)).)).. ( -32.20)
>DroAna_CAF1 14009 101 + 1
CGU-UAAAGGUGCUUCCUUCAAAUGCAAAGCAGAUGUUGAGUUGUUUACAUAACCCCAUCAUAGAAACUCAUUAUUAAACAGGAUGAAAGCAUCCU--------AUUUUU-
...-...(((((((((.(((...(((...)))((((.((((((......................)))))).)))).....))).).))))).)))--------......- ( -16.75)
>consensus
CCU_UAAGGGUAAC___AUUGCUUAUCAAACAGAUGUCCUGGCAUUUACAUAGCCCCAACAUAACAAAUUACGCUUACUCAGGAUGGAGGUAUCCAUCCUUCCUGUUGCUC
.......(((((((.................((((((....))))))..................................(((((((....))))))).....))))))) (-11.34 = -13.37 +   2.03)

alignment

secondary structure

dotplot

Window 4

Location	5,594,407 – 5,594,518
Length	111
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	91.62
Mean single sequence MFE	-32.24
Consensus MFE	-24.62
Energy contribution	-25.18
Covariance contribution	0.56
Combinations/Pair	1.13
Mean z-score	-1.59
Structure conservation index	0.76
SVM decision value	0.08
SVM RNA-class probability	0.572634
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5594407 111 - 23771897
GUAAUCAUGGAAUCCGAGAGGGUUGUUAUUCAGCUUUGUUGAGCAACAGGAAGGAUGGAUACCUCCAUCCUGUGUACGCGUAAUUUGUUAUGUUGGAGCUAUGUAAAUGCC
(((..((((((((((....)))))....((((((((....)))).(((...((((((((....)))))))).)))..((((((....)))))))))).)))))....))). ( -31.10)
>DroSec_CAF1 13716 111 - 1
GUAAUCAUGGAAUCCGAGAGGGUUGUUAUUCAGCUUUGUUGAGCAACAGGAAGGAUGGAUACCUCCAUCCUGAAUAAGCGUAAUUUGUUUUGUUGGGGCUAUGUAAAUGUC
.....((((((((((....))))).((((((.((((....)))).......((((((((....)))))))))))))).(.((((.......)))).).)))))........ ( -30.30)
>DroSim_CAF1 13327 111 - 1
GUAAUCAUGGAAUCCGAGAGGGUUGUUAUUCAGCUUUGUCGAGGAACAGGAAGGAUGGAUACCUCCAUCCUGAGUAAGCGUAAUUUGUUUUGUUGGGGCUAUGUAAAUGAC
....((((..(((((....))))).((((..((((..(....((((((((.((((((((....))))))))..(....)....))))))))..)..))))..)))))))). ( -31.40)
>DroEre_CAF1 14897 111 - 1
GUGAUCAGGGAAUCCAAGAGGAUUAUUAUCCAGCUUUGUUGAGCAACAGGAUGGAUGGAUACCUCCAUCCUGAGCAAACGUAAUUUGUUAUUUUGGGGCUAUGUAAAUGCC
.............((((((((((....)))).((((....))))..(((((((((.((...)))))))))))((((((.....)))))).))))))(((.........))) ( -33.30)
>DroYak_CAF1 12900 111 - 1
GCAAUCAGGGAAUCCGAGAGGGUUGCUAUUCGGCUUUGUUGAGCAACAGGAAGGAUGGAUACCUCCAUCCUGAGUAAGCGUAAUUUGUUAUUUUGGGGCUAUGUAAAUGCC
.......((.(((((....))))).))....(((((((...(((..(((((((((((((....)))))))).....((((.....)))).)))))..)))...)))).))) ( -35.10)
>consensus
GUAAUCAUGGAAUCCGAGAGGGUUGUUAUUCAGCUUUGUUGAGCAACAGGAAGGAUGGAUACCUCCAUCCUGAGUAAGCGUAAUUUGUUAUGUUGGGGCUAUGUAAAUGCC
.....((((((((((....)))))....((((((((((((....)))))).((((((((....))))))))....................)))))).)))))........ (-24.62 = -25.18 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:50 2006