Locus 8745

Sequence ID	3L_DroMel_CAF1
Location	22,851,054 – 22,851,148
Length	94
Max. P	0.999818

overview

Window 8

Location	22,851,054 – 22,851,148
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	91.06
Mean single sequence MFE	-28.96
Consensus MFE	-27.02
Energy contribution	-27.30
Covariance contribution	0.28
Combinations/Pair	1.09
Mean z-score	-2.36
Structure conservation index	0.93
SVM decision value	3.89
SVM RNA-class probability	0.999690
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22851054 94 + 23771897
AAUGGAUCUUUGUCUGCGUCCAGGCUGGCAGGCUGAGUUCUGGCAUUCAAGUGCCAGCCUGCCAAAUUUCCCAAGCACUGCUCUCACUUCCACC
..((((.....(((((....)))))((((((((((.((.((........)).))))))))))))........................)))).. ( -31.40)
>DroSec_CAF1 39302 94 + 1
AAUGGAUCUUUGUCUGCGCCCAGGCUGGCAGGCUGAGUCCUGGCAUUCAAGUGCCAGCCUGCCAAAUUUCCCAAGCACUGUUCUCACUUCCACC
..((((.....(((((....)))))((((((((((.(..((........))..)))))))))))........................)))).. ( -31.90)
>DroSim_CAF1 40479 94 + 1
AAUGGAUCUUUGUCUGCGCCCAGGCUGGCAGGCUGAGUCCUGGCAUUCAAGUGCCAGCCUGCCAAAUUUCCCAAGCACUGUUCUCACUUCCACC
..((((.....(((((....)))))((((((((((.(..((........))..)))))))))))........................)))).. ( -31.90)
>DroEre_CAF1 44153 94 + 1
AAUGGAUUUUUGUCUGCACCCCGGCUGGCAGGCUGAGUCCUGGCAUUCAAGUGCCAGCCUGCCAAAUUUCCCAAACACUCUUCGCACUUCCACA
..((((....(((..((......))((((((((((.(..((........))..)))))))))))...................)))..)))).. ( -28.50)
>DroYak_CAF1 41424 94 + 1
AAUGGAUCUGUGUCUGCGCCCAGGCUGACAGGCUGAGUCCUGACAUUCAAGUGAUAGCUUGCCAAUUUUCACAAACACUUUUUACACUUCCACC
..((((..((((((((....)))))((.((((((..(((((........)).))))))))).))...................)))..)))).. ( -21.10)
>consensus
AAUGGAUCUUUGUCUGCGCCCAGGCUGGCAGGCUGAGUCCUGGCAUUCAAGUGCCAGCCUGCCAAAUUUCCCAAGCACUGUUCUCACUUCCACC
..((((.....(((((....)))))((((((((((.((.((........)).))))))))))))........................)))).. (-27.02 = -27.30 +   0.28)

alignment

secondary structure

dotplot

Window 9

Location	22,851,054 – 22,851,148
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	91.06
Mean single sequence MFE	-36.76
Consensus MFE	-32.02
Energy contribution	-32.98
Covariance contribution	0.96
Combinations/Pair	1.13
Mean z-score	-3.12
Structure conservation index	0.87
SVM decision value	4.16
SVM RNA-class probability	0.999818
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22851054 94 - 23771897
GGUGGAAGUGAGAGCAGUGCUUGGGAAAUUUGGCAGGCUGGCACUUGAAUGCCAGAACUCAGCCUGCCAGCCUGGACGCAGACAAAGAUCCAUU
.(((((.((....)).(((.(..((....((((((((((((((......)))).(....)))))))))))))..).))).........))))). ( -36.60)
>DroSec_CAF1 39302 94 - 1
GGUGGAAGUGAGAACAGUGCUUGGGAAAUUUGGCAGGCUGGCACUUGAAUGCCAGGACUCAGCCUGCCAGCCUGGGCGCAGACAAAGAUCCAUU
.(((((.((....)).(((((..((....((((((((((((..((((.....))))..))))))))))))))..))))).........))))). ( -43.40)
>DroSim_CAF1 40479 94 - 1
GGUGGAAGUGAGAACAGUGCUUGGGAAAUUUGGCAGGCUGGCACUUGAAUGCCAGGACUCAGCCUGCCAGCCUGGGCGCAGACAAAGAUCCAUU
.(((((.((....)).(((((..((....((((((((((((..((((.....))))..))))))))))))))..))))).........))))). ( -43.40)
>DroEre_CAF1 44153 94 - 1
UGUGGAAGUGCGAAGAGUGUUUGGGAAAUUUGGCAGGCUGGCACUUGAAUGCCAGGACUCAGCCUGCCAGCCGGGGUGCAGACAAAAAUCCAUU
.(((((...((.....))(((((.(....((((((((((((..((((.....))))..))))))))))))......).))))).....))))). ( -33.90)
>DroYak_CAF1 41424 94 - 1
GGUGGAAGUGUAAAAAGUGUUUGUGAAAAUUGGCAAGCUAUCACUUGAAUGUCAGGACUCAGCCUGUCAGCCUGGGCGCAGACACAGAUCCAUU
.(((((..(......)((((((((......(((((.(((....((((.....))))....))).)))))((....))))))))))...))))). ( -26.50)
>consensus
GGUGGAAGUGAGAACAGUGCUUGGGAAAUUUGGCAGGCUGGCACUUGAAUGCCAGGACUCAGCCUGCCAGCCUGGGCGCAGACAAAGAUCCAUU
.(((((.((....)).(((((..((....((((((((((((..((((.....))))..))))))))))))))..))))).........))))). (-32.02 = -32.98 +   0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:36 2006