Locus 3048

Sequence ID	3R_DroMel_CAF1
Location	8,091,099 – 8,091,219
Length	120
Max. P	0.975257

overview

Window 7

Location	8,091,099 – 8,091,219
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.67
Mean single sequence MFE	-36.70
Consensus MFE	-34.32
Energy contribution	-35.16
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.69
Structure conservation index	0.94
SVM decision value	1.75
SVM RNA-class probability	0.975257
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8091099 120 + 27905053
UUUCCUGUGGCAACAUCAACUUCCUGUUGUGGCAUGGAAAUCUCCUAGUCAGCGUUUCACACGCCGUCUGACAACUGCAGCCGCUUUGAAGUUGCAUGCAGCGCAUUUUCCGCUGUGUGU
......(((....)))(((((((.....(((((..(((....)))..(((((((..........)).))))).......)))))...)))))))(((((((((.......))))))))). ( -39.30)
>DroSec_CAF1 42871 120 + 1
UUUCCUGUGGCAACAUCAACUUCCUGUUGUGGCAUGGAAAUCUUCUAGUCAGCGUUUCACACGCCGUCUGACAACUGCAACCGCUUUGAAGUCGCAUUCAGCGCAUUUUCCGCUGUGUGU
((((((((.((((((.........)))))).))).))))).((((..(((((((..........)).)))))....((....))...))))..((((.(((((.......))))).)))) ( -34.50)
>DroSim_CAF1 14876 120 + 1
UUUCCUGUGGCAACAUCAACUUCCUGUUGUGGCAUGGAAAUCUCCUAGUCAGCGUUUCACACGCCGUCUGACAACUGCAGCCGCUUUGAAGUUGCAUGCAGCGCAUUUUCCGCUGUGUGU
......(((....)))(((((((.....(((((..(((....)))..(((((((..........)).))))).......)))))...)))))))(((((((((.......))))))))). ( -39.30)
>DroEre_CAF1 17913 120 + 1
UUUCCUGUGGCAACAUCAACUUCCUGUUUUGGCAUGGAAAUCUCCUAGUCAGCGUUUCACACGCCGCCUGACAACUGCAGCCGCUUUGAAGUUGCAUGCAGCGCAUUUUCCGCUGUGUGU
......(((....)))(((((((..((...(((..(((....)))..(((((((..........)).))))).......)))))...)))))))(((((((((.......))))))))). ( -35.20)
>DroYak_CAF1 11262 120 + 1
UUUCCUGUGGCAACAUCAACUUCCUGUUUUGGCAUGGAAAUCUCCUAGUCAGCGUUUCACACGCCGCCUGACAACUGCAGCCGCUUUGAAGUUGCAUGCAGCGCAUUUUCCGCUGUGUGU
......(((....)))(((((((..((...(((..(((....)))..(((((((..........)).))))).......)))))...)))))))(((((((((.......))))))))). ( -35.20)
>consensus
UUUCCUGUGGCAACAUCAACUUCCUGUUGUGGCAUGGAAAUCUCCUAGUCAGCGUUUCACACGCCGUCUGACAACUGCAGCCGCUUUGAAGUUGCAUGCAGCGCAUUUUCCGCUGUGUGU
......(((....)))(((((((.....(((((..(((....)))..(((((((..........)).))))).......)))))...)))))))(((((((((.......))))))))). (-34.32 = -35.16 +   0.84)

alignment

secondary structure

dotplot

Window 8

Location	8,091,099 – 8,091,219
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.67
Mean single sequence MFE	-36.52
Consensus MFE	-33.64
Energy contribution	-33.48
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.38
Structure conservation index	0.92
SVM decision value	0.60
SVM RNA-class probability	0.796817
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8091099 120 - 27905053
ACACACAGCGGAAAAUGCGCUGCAUGCAACUUCAAAGCGGCUGCAGUUGUCAGACGGCGUGUGAAACGCUGACUAGGAGAUUUCCAUGCCACAACAGGAAGUUGAUGUUGCCACAGGAAA
.....(((((....((((((((..(((((((.((.......)).))))).))..))))))))....))))).........(((((.((...(((((.........)))))...))))))) ( -35.40)
>DroSec_CAF1 42871 120 - 1
ACACACAGCGGAAAAUGCGCUGAAUGCGACUUCAAAGCGGUUGCAGUUGUCAGACGGCGUGUGAAACGCUGACUAGAAGAUUUCCAUGCCACAACAGGAAGUUGAUGUUGCCACAGGAAA
.....(((((....((((((((..(((((((.(((.....))).))))).))..))))))))....))))).........(((((.((...(((((.........)))))...))))))) ( -35.80)
>DroSim_CAF1 14876 120 - 1
ACACACAGCGGAAAAUGCGCUGCAUGCAACUUCAAAGCGGCUGCAGUUGUCAGACGGCGUGUGAAACGCUGACUAGGAGAUUUCCAUGCCACAACAGGAAGUUGAUGUUGCCACAGGAAA
.....(((((....((((((((..(((((((.((.......)).))))).))..))))))))....))))).........(((((.((...(((((.........)))))...))))))) ( -35.40)
>DroEre_CAF1 17913 120 - 1
ACACACAGCGGAAAAUGCGCUGCAUGCAACUUCAAAGCGGCUGCAGUUGUCAGGCGGCGUGUGAAACGCUGACUAGGAGAUUUCCAUGCCAAAACAGGAAGUUGAUGUUGCCACAGGAAA
.....(((((....(((((((((.(((((((.((.......)).))))).)).)))))))))....)))))....((.(((((((.((......))))))))).......))........ ( -38.00)
>DroYak_CAF1 11262 120 - 1
ACACACAGCGGAAAAUGCGCUGCAUGCAACUUCAAAGCGGCUGCAGUUGUCAGGCGGCGUGUGAAACGCUGACUAGGAGAUUUCCAUGCCAAAACAGGAAGUUGAUGUUGCCACAGGAAA
.....(((((....(((((((((.(((((((.((.......)).))))).)).)))))))))....)))))....((.(((((((.((......))))))))).......))........ ( -38.00)
>consensus
ACACACAGCGGAAAAUGCGCUGCAUGCAACUUCAAAGCGGCUGCAGUUGUCAGACGGCGUGUGAAACGCUGACUAGGAGAUUUCCAUGCCACAACAGGAAGUUGAUGUUGCCACAGGAAA
.....(((((....((((((((..(((((((.((.......)).))))).))..))))))))....))))).......(((((((.((......)))))))))................. (-33.64 = -33.48 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:27 2006