Locus 7066

Sequence ID	2L_DroMel_CAF1
Location	19,795,402 – 19,795,503
Length	101
Max. P	0.978482

overview

Window 6

Location	19,795,402 – 19,795,503
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	88.16
Mean single sequence MFE	-23.78
Consensus MFE	-19.63
Energy contribution	-20.23
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.21
Structure conservation index	0.83
SVM decision value	1.81
SVM RNA-class probability	0.978482
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19795402 101 + 22407834
GCUGUCGGCCACAAUACCAGCGUUAUUGGGCAUCCAGUAUUAUCCUGCAUUAUCCUGUAUAUUCCACUUCGAUAAUACAGUCGUUGCACCCUUCGACACAA
..((((((((.(((((.......))))))))..............((((.....((((((..((......))..))))))....)))).....)))))... ( -22.40)
>DroSec_CAF1 61915 101 + 1
GCUGUCGGCCACAAUACCAGCGUUAUUGGGCUUCCUGUAUUAUCCUGCAUUAUCCUGUAUAUUCCACUUCGAUAAUACAGUCGUUGCACCCUUCGACACAA
..((((((((.(((((.......))))))))...((((((((((.((((......))))...........)))))))))).............)))))... ( -22.60)
>DroSim_CAF1 63199 91 + 1
GCUGUCGGCCACAAUACCAGCGUUAUUGGGCUUCCUGUAUUA----------UCCUGUAUAUUCCACUUCGAUAAUACAGUCGUUGCACCCUUCGACACAA
..((((((((.(((((.......))))))))...((((((((----------((..((.......))...)))))))))).............)))))... ( -23.50)
>DroEre_CAF1 63331 89 + 1
GCUGUCGGCCACAAUACCAGCGUUAUUGGGCUUCCUGUAUUAUCCCG------------UAUUCCAGUGCGAUAAUACAGUCGUUGCACCCUUCGACACAA
..((((((((.(((((.......))))))))...((((((((((..(------------(((....)))))))))))))).............)))))... ( -25.60)
>DroYak_CAF1 64360 89 + 1
GCUGUCGGCCACAAUACCAGCGAUAUUGGGCUUCCUGUAUUAUCCUG------------UAUUCCAGUUCGAUAAUACAGUCGUUGCACCCUUCGACACAA
..((((((((.(((((.......))))))))...(((((((((((((------------.....)))...)))))))))).............)))))... ( -24.80)
>consensus
GCUGUCGGCCACAAUACCAGCGUUAUUGGGCUUCCUGUAUUAUCCUG_____UCCUGUAUAUUCCACUUCGAUAAUACAGUCGUUGCACCCUUCGACACAA
..((((((((.(((((.......))))))))...((((((((((..........................)))))))))).............)))))... (-19.63 = -20.23 +   0.60)

alignment

secondary structure

dotplot

Window 7

Location	19,795,402 – 19,795,503
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	88.16
Mean single sequence MFE	-28.54
Consensus MFE	-22.23
Energy contribution	-22.83
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.01
Structure conservation index	0.78
SVM decision value	0.98
SVM RNA-class probability	0.894549
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19795402 101 - 22407834
UUGUGUCGAAGGGUGCAACGACUGUAUUAUCGAAGUGGAAUAUACAGGAUAAUGCAGGAUAAUACUGGAUGCCCAAUAACGCUGGUAUUGUGGCCGACAGC
(((..((....))..)))...((((((((((...(((.....)))..)))))))))).......(((...((((((((.......))))).)))...))). ( -29.20)
>DroSec_CAF1 61915 101 - 1
UUGUGUCGAAGGGUGCAACGACUGUAUUAUCGAAGUGGAAUAUACAGGAUAAUGCAGGAUAAUACAGGAAGCCCAAUAACGCUGGUAUUGUGGCCGACAGC
(((..((....))..)))((.((((((((((...(((.....)))..)))))))))).(((((((....(((........))).)))))))...))..... ( -27.30)
>DroSim_CAF1 63199 91 - 1
UUGUGUCGAAGGGUGCAACGACUGUAUUAUCGAAGUGGAAUAUACAGGA----------UAAUACAGGAAGCCCAAUAACGCUGGUAUUGUGGCCGACAGC
...(((((..((((.......((((((((((...(((.....)))..))----------))))))))...)))).....(((.......)))..))))).. ( -26.90)
>DroEre_CAF1 63331 89 - 1
UUGUGUCGAAGGGUGCAACGACUGUAUUAUCGCACUGGAAUA------------CGGGAUAAUACAGGAAGCCCAAUAACGCUGGUAUUGUGGCCGACAGC
...(((((..((((.......((((((((((...(((.....------------)))))))))))))...)))).....(((.......)))..))))).. ( -27.80)
>DroYak_CAF1 64360 89 - 1
UUGUGUCGAAGGGUGCAACGACUGUAUUAUCGAACUGGAAUA------------CAGGAUAAUACAGGAAGCCCAAUAUCGCUGGUAUUGUGGCCGACAGC
(((..((....))..)))((.((((((((((...(((.....------------)))))))))))))...(((((((((.....)))))).)))))..... ( -31.50)
>consensus
UUGUGUCGAAGGGUGCAACGACUGUAUUAUCGAAGUGGAAUAUACAGGA_____CAGGAUAAUACAGGAAGCCCAAUAACGCUGGUAUUGUGGCCGACAGC
(((..((....))..)))((.((((((((((..........................))))))))))...((((((((.......))))).)))))..... (-22.23 = -22.83 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:28 2006