Locus 7604

Sequence ID	2L_DroMel_CAF1
Location	21,049,652 – 21,049,770
Length	118
Max. P	0.970879

overview

Window 4

Location	21,049,652 – 21,049,770
Length	118
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	81.21
Mean single sequence MFE	-25.63
Consensus MFE	-9.91
Energy contribution	-12.65
Covariance contribution	2.74
Combinations/Pair	1.03
Mean z-score	-3.16
Structure conservation index	0.39
SVM decision value	1.67
SVM RNA-class probability	0.970879
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21049652 118 + 22407834
AUGGACAAUACAUUGAAUAUUCGACAGAUAACAUGGACAAAAUAAAUGUUUCUUUACUCAUACGAGUAUUGUCGAGUAUCGAAUAUGUAUUGUAUUGAAUUCCAAAGCCAAUUAAAAU
.((((((((((((...((((((((((((.(((((...........)))))))..(((((....))))).)))))))))).....))))))))).(((.....)))..)))........ ( -29.80)
>DroSec_CAF1 3721 113 + 1
AUGGACAAUACAUUGAAUAUUCGACAGAUAGCACGGACAAAAUAAAUGUUUCUUUACUCAUACGAGUAUUGUCGAAUAUCGAAUAUGUA-----UUGAAUUCCAAAGCCAAUUCAAAU
.((((((((((((...(((((((((((.......(((((.......)))))...(((((....)))))))))))))))).....)))))-----)))...)))).............. ( -28.60)
>DroSim_CAF1 3672 113 + 1
AUGGACAAUACAUUGAAUAUUCGACAGAUAGCACGGACAAAAUAAAUGUUUCUUUACUCAUACGAGUAUUGUCGAAUAUCGAAUAUGUA-----UUGAAUUCCAAAGCCAAUUCAAAU
.((((((((((((...(((((((((((.......(((((.......)))))...(((((....)))))))))))))))).....)))))-----)))...)))).............. ( -28.60)
>DroEre_CAF1 3803 107 + 1
AUGGACAAUGCAUUGGAUCUUCGAGAGAUAACGUGGACAAAACAAAUGUUUCUUAACUCAC------AUUGUCGAAUAUCGAAUAUGUA-----UUGAACUCCCAGGGCAAAUAAAAU
........(((.((((...(((((((((((...((.......))..)))))))).....((------((..(((.....)))..)))).-----..)))...)))).)))........ ( -20.00)
>DroYak_CAF1 4360 95 + 1
AUGGACAAU----UCGAUAUUCGAGAGAUAACCUGGACAAAUUAAAUGUAUUCCUAC--------------UCGAAUAUCGAAUAUUUA-----UUGUAUUCCAAAGCCAAUUAAAAU
.(((.(.((----((((((((((((((.....))(((..............)))..)--------------))))))))))))).....-----(((.....))).))))........ ( -21.14)
>consensus
AUGGACAAUACAUUGAAUAUUCGACAGAUAACAUGGACAAAAUAAAUGUUUCUUUACUCAUACGAGUAUUGUCGAAUAUCGAAUAUGUA_____UUGAAUUCCAAAGCCAAUUAAAAU
.(((((((........((((((((..(((((...(((((.......)))))...(((((....)))))))))).....))))))))........)))...)))).............. ( -9.91 = -12.65 +   2.74)

alignment

secondary structure

dotplot

Window 5

Location	21,049,652 – 21,049,770
Length	118
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	81.21
Mean single sequence MFE	-24.62
Consensus MFE	-10.05
Energy contribution	-12.81
Covariance contribution	2.76
Combinations/Pair	1.21
Mean z-score	-2.30
Structure conservation index	0.41
SVM decision value	0.19
SVM RNA-class probability	0.628457
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21049652 118 - 22407834
AUUUUAAUUGGCUUUGGAAUUCAAUACAAUACAUAUUCGAUACUCGACAAUACUCGUAUGAGUAAAGAAACAUUUAUUUUGUCCAUGUUAUCUGUCGAAUAUUCAAUGUAUUGUCCAU
..............((((...(((((((....((((((((((...((((.(((((....))))).....(((.......)))...))))...))))))))))....))))))))))). ( -26.10)
>DroSec_CAF1 3721 113 - 1
AUUUGAAUUGGCUUUGGAAUUCAA-----UACAUAUUCGAUAUUCGACAAUACUCGUAUGAGUAAAGAAACAUUUAUUUUGUCCGUGCUAUCUGUCGAAUAUUCAAUGUAUUGUCCAU
..............((((...(((-----(((((....(((((((((((((((.((...(((((((......)))))))....)).).))).)))))))))))..)))))))))))). ( -28.00)
>DroSim_CAF1 3672 113 - 1
AUUUGAAUUGGCUUUGGAAUUCAA-----UACAUAUUCGAUAUUCGACAAUACUCGUAUGAGUAAAGAAACAUUUAUUUUGUCCGUGCUAUCUGUCGAAUAUUCAAUGUAUUGUCCAU
..............((((...(((-----(((((....(((((((((((((((.((...(((((((......)))))))....)).).))).)))))))))))..)))))))))))). ( -28.00)
>DroEre_CAF1 3803 107 - 1
AUUUUAUUUGCCCUGGGAGUUCAA-----UACAUAUUCGAUAUUCGACAAU------GUGAGUUAAGAAACAUUUGUUUUGUCCACGUUAUCUCUCGAAGAUCCAAUGCAUUGUCCAU
........(((..((((..(((..-----.......(((.....))).(((------(((.(....(((((....)))))..))))))).......)))..))))..)))........ ( -18.50)
>DroYak_CAF1 4360 95 - 1
AUUUUAAUUGGCUUUGGAAUACAA-----UAAAUAUUCGAUAUUCGA--------------GUAGGAAUACAUUUAAUUUGUCCAGGUUAUCUCUCGAAUAUCGA----AUUGUCCAU
..............((((......-----.....(((((((((((((--------------(.(((((((((.......)))....))).)))))))))))))))----))..)))). ( -22.52)
>consensus
AUUUUAAUUGGCUUUGGAAUUCAA_____UACAUAUUCGAUAUUCGACAAUACUCGUAUGAGUAAAGAAACAUUUAUUUUGUCCAUGUUAUCUGUCGAAUAUUCAAUGUAUUGUCCAU
...............(((..............(((((.(((((((((((......(((((..(((((.........)))))..)))))....))))))))))).)))))....))).. (-10.05 = -12.81 +   2.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:55 2006