Locus 7991

Sequence ID	3L_DroMel_CAF1
Location	21,114,857 – 21,115,017
Length	160
Max. P	0.932664

overview

Window 1

Location	21,114,857 – 21,114,977
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.50
Mean single sequence MFE	-39.73
Consensus MFE	-36.09
Energy contribution	-35.33
Covariance contribution	-0.76
Combinations/Pair	1.13
Mean z-score	-1.48
Structure conservation index	0.91
SVM decision value	1.22
SVM RNA-class probability	0.932664
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21114857 120 - 23771897
UCUGGUCGCUGGGAAAGUCGCUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUAAGGAAGCGCAGAAUGGCGAUGCGCGUCUUGGUAGUUGGCGUUUGAGUAGAAUCCGAUAUGAUUCUAA
(((((((((((.((((((....)))))).)))).......)))))))(((....))).(((((.........)))))(((.........))).......(((((((......))))))). ( -39.21)
>DroSec_CAF1 165457 120 - 1
UCUGGUCGCUGGGAAAGUCACUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUUAGGAAGCGCAGAAUGGCGAUGCGCGUCUUGGUAGUUGGUGUUUGAGUAGAAUCCGAUAUGAUUCUAA
(((((((((((.((((((....)))))).)))).......))))))).(..((((((.(((((.........))))).))))))..)............(((((((......))))))). ( -37.51)
>DroSim_CAF1 77166 120 - 1
UCUGGUCGCUGGGAAAGUCGCUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUUAGGAAGCGCAGAAUGGCGAUGCGCGUCUUGGUAGUUGGCGUUUGAGUAGAAUCCGAUAUGAUUCUAA
(((((((((((.((((((....)))))).)))).......))))))).(..((((((.(((((.........))))).))))))..)............(((((((......))))))). ( -37.51)
>DroEre_CAF1 87982 120 - 1
UCUGGUCGCUGGGAAAGUCGCUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUGAGGAAUCGCAAAAUGGCGAUGCGCGUCUUGGUAGUUGGCGUUUGAGUGGAGUCCGAGAUGAUUCUAA
(((((((((((.((((((....)))))).)))).......)))))))(((....)))(((((......)))))...((((((((.(.((.((......)).)).)))))))))....... ( -45.01)
>DroYak_CAF1 58835 120 - 1
UUUGGUCGCUGGGAAAAUCGCUGCUUUUGCAGUACGUAUUGGCCAGAUCCGUGAGGAAGCGCAAAAUGGCGAUGCGCGUCUUGGUAGUUGGCGUUUGAGUGGAAUCCGAGAUGAUUCUAA
((((((((.((.(......(((((....))))).).)).))))))))(((....))).(((((.........)))))(((((((...((.((......)).))..)))))))........ ( -39.40)
>consensus
UCUGGUCGCUGGGAAAGUCGCUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUGAGGAAGCGCAGAAUGGCGAUGCGCGUCUUGGUAGUUGGCGUUUGAGUAGAAUCCGAUAUGAUUCUAA
(((((((((((.((((((....)))))).)))).......)))))))(((....)))......(((((.((((..((......)).)))).)))))...(((((((......))))))). (-36.09 = -35.33 +  -0.76)

alignment

secondary structure

dotplot

Window 2

Location	21,114,897 – 21,115,017
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.83
Mean single sequence MFE	-48.61
Consensus MFE	-46.35
Energy contribution	-46.79
Covariance contribution	0.44
Combinations/Pair	1.03
Mean z-score	-1.08
Structure conservation index	0.95
SVM decision value	-0.02
SVM RNA-class probability	0.525529
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21114897 120 - 23771897
AGCUGGGCCAGCUUUAGGACCGUCCGCUCGCAGGCCUGGCUCUGGUCGCUGGGAAAGUCGCUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUAAGGAAGCGCAGAAUGGCGAUGCGCGUC
.((..((((.((....((.....))....)).))))..))(((((((((((.((((((....)))))).)))).......)))))))(((....))).(((((.........)))))... ( -51.51)
>DroSec_CAF1 165497 120 - 1
AGCUGGGCCAGCUUUAGGACCGUCCGCUCGCAGGCCUGGCUCUGGUCGCUGGGAAAGUCACUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUUAGGAAGCGCAGAAUGGCGAUGCGCGUC
.((..((((.((....((.....))....)).))))..))(((((((((((.((((((....)))))).)))).......)))))))(((....))).(((((.........)))))... ( -49.51)
>DroSim_CAF1 77206 120 - 1
AGCUGGGCCAGCUUUAGGACCGUCCGCUCGCAGGCCUGGCUCUGGUCGCUGGGAAAGUCGCUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUUAGGAAGCGCAGAAUGGCGAUGCGCGUC
.((..((((.((....((.....))....)).))))..))(((((((((((.((((((....)))))).)))).......)))))))(((....))).(((((.........)))))... ( -49.51)
>DroEre_CAF1 88022 120 - 1
AGCUGGGCCAGCUUUAGGACCGUCCGCUCGCAGGCCUGACUCUGGUCGCUGGGAAAGUCGCUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUGAGGAAUCGCAAAAUGGCGAUGCGCGUC
.((.(((((.((....((.....))....)).)))))...(((((((((((.((((((....)))))).)))).......)))))))(((....)))(((((......)))))..))... ( -45.31)
>DroYak_CAF1 58875 120 - 1
AGCUGGGCCAGCUUUAGGACCGUCCGCUCGCAGGCCUGGCUUUGGUCGCUGGGAAAAUCGCUGCUUUUGCAGUACGUAUUGGCCAGAUCCGUGAGGAAGCGCAAAAUGGCGAUGCGCGUC
.((..((((.((....((.....))....)).))))..))((((((((.((.(......(((((....))))).).)).))))))))(((....))).(((((.........)))))... ( -47.20)
>consensus
AGCUGGGCCAGCUUUAGGACCGUCCGCUCGCAGGCCUGGCUCUGGUCGCUGGGAAAGUCGCUGCUUUUGCAGUAUGUAUUGGCCAGAUCCGUGAGGAAGCGCAGAAUGGCGAUGCGCGUC
.((((((((.((....((.....))....)).))))))))(((((((((((.((((((....)))))).)))).......)))))))(((....))).(((((.........)))))... (-46.35 = -46.79 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:04 2006