Locus 2735

Sequence ID	3L_DroMel_CAF1
Location	7,675,918 – 7,676,015
Length	97
Max. P	0.972321

overview

Window 0

Location	7,675,918 – 7,676,015
Length	97
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	90.92
Mean single sequence MFE	-21.40
Consensus MFE	-19.18
Energy contribution	-20.57
Covariance contribution	1.39
Combinations/Pair	1.05
Mean z-score	-2.02
Structure conservation index	0.90
SVM decision value	1.69
SVM RNA-class probability	0.972321
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7675918 97 + 23771897
ACAGAGAGAAAGAGAAGGCGGCAAAGACGUUUGCAUGACAAGCUUAAGGUUCGAAAAAGUAAAUUGGAAAGUUUGCUUACUUCAA-AAACUAAGCCGC
.................(((((......(((((.....)))))....((((.(((.(((((((((....)))))))))..)))..-.))))..))))) ( -22.40)
>DroGri_CAF1 64977 88 + 1
----------AGAGAACGCAGCAAAUAUGUUUGUUGGACAAGCUUAAAGUUCUUAAAAGUGAAUUGGAAAGUUAGCUUACUUCAAAAAAAGAAGCUGC
----------.......(((((......(((((.....))))).............((((.((((....)))).))))...............))))) ( -16.70)
>DroSec_CAF1 37309 97 + 1
ACAGAGAGAAAGAGAAGGCGGCAAAGACGUUUGCAUGACAAGCUUAAGGUUCGAAAAAGUAAAUUGGAAAGUUUGCUUACUUCAA-AAACUAAGCCGC
.................(((((......(((((.....)))))....((((.(((.(((((((((....)))))))))..)))..-.))))..))))) ( -22.40)
>DroSim_CAF1 50319 97 + 1
ACAGAGAGAAAGAGAAGGCGGCAAAGACGUUUGCAUGACAAGCUUAAGGUUCGAAAAAGUAAAUUGGAAAGUUUGCUUACUUCAA-AAACUAAGCCGC
.................(((((......(((((.....)))))....((((.(((.(((((((((....)))))))))..)))..-.))))..))))) ( -22.40)
>DroEre_CAF1 50399 97 + 1
ACAGAGAGAAAGAGAAGGCGGCAAAGACGUUUGCAUGACAAGCUUAAGGUUCGAAAAAGUAAAUUGGAAAGUUUGCUUACUUCAA-AAACUAAGCCGC
.................(((((......(((((.....)))))....((((.(((.(((((((((....)))))))))..)))..-.))))..))))) ( -22.40)
>DroYak_CAF1 51954 98 + 1
ACAGAGAGAAAGAGAAGGCGGCAAAGACGUUUGCAUGACAAGCUUAAGGUUCGAAAAAGUAAAUUGGAAAGUUUGCUUACUUCAAAAAACUAAGCCGC
.................(((((......(((((.....))))).........(((.(((((((((....)))))))))..)))..........))))) ( -22.10)
>consensus
ACAGAGAGAAAGAGAAGGCGGCAAAGACGUUUGCAUGACAAGCUUAAGGUUCGAAAAAGUAAAUUGGAAAGUUUGCUUACUUCAA_AAACUAAGCCGC
.................(((((......(((((.....))))).............(((((((((....)))))))))...............))))) (-19.18 = -20.57 +   1.39)

alignment

secondary structure

dotplot

Window 1

Location	7,675,918 – 7,676,015
Length	97
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	90.92
Mean single sequence MFE	-16.20
Consensus MFE	-14.98
Energy contribution	-15.03
Covariance contribution	0.06
Combinations/Pair	1.05
Mean z-score	-1.15
Structure conservation index	0.92
SVM decision value	0.25
SVM RNA-class probability	0.655311
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7675918 97 - 23771897
GCGGCUUAGUUU-UUGAAGUAAGCAAACUUUCCAAUUUACUUUUUCGAACCUUAAGCUUGUCAUGCAAACGUCUUUGCCGCCUUCUCUUUCUCUCUGU
(((((((((..(-((((((.(((.(((........))).))))))))))..)))))).......(((((....))))))))................. ( -16.80)
>DroGri_CAF1 64977 88 - 1
GCAGCUUCUUUUUUUGAAGUAAGCUAACUUUCCAAUUCACUUUUAAGAACUUUAAGCUUGUCCAACAAACAUAUUUGCUGCGUUCUCU----------
(((((.......((((..(((((((((..(((..............)))..)).)))))).)...)))).......))))).......---------- ( -13.28)
>DroSec_CAF1 37309 97 - 1
GCGGCUUAGUUU-UUGAAGUAAGCAAACUUUCCAAUUUACUUUUUCGAACCUUAAGCUUGUCAUGCAAACGUCUUUGCCGCCUUCUCUUUCUCUCUGU
(((((((((..(-((((((.(((.(((........))).))))))))))..)))))).......(((((....))))))))................. ( -16.80)
>DroSim_CAF1 50319 97 - 1
GCGGCUUAGUUU-UUGAAGUAAGCAAACUUUCCAAUUUACUUUUUCGAACCUUAAGCUUGUCAUGCAAACGUCUUUGCCGCCUUCUCUUUCUCUCUGU
(((((((((..(-((((((.(((.(((........))).))))))))))..)))))).......(((((....))))))))................. ( -16.80)
>DroEre_CAF1 50399 97 - 1
GCGGCUUAGUUU-UUGAAGUAAGCAAACUUUCCAAUUUACUUUUUCGAACCUUAAGCUUGUCAUGCAAACGUCUUUGCCGCCUUCUCUUUCUCUCUGU
(((((((((..(-((((((.(((.(((........))).))))))))))..)))))).......(((((....))))))))................. ( -16.80)
>DroYak_CAF1 51954 98 - 1
GCGGCUUAGUUUUUUGAAGUAAGCAAACUUUCCAAUUUACUUUUUCGAACCUUAAGCUUGUCAUGCAAACGUCUUUGCCGCCUUCUCUUUCUCUCUGU
(((((..((...((((..((((((.....(((.((........)).)))......))))).)...))))...))..)))))................. ( -16.70)
>consensus
GCGGCUUAGUUU_UUGAAGUAAGCAAACUUUCCAAUUUACUUUUUCGAACCUUAAGCUUGUCAUGCAAACGUCUUUGCCGCCUUCUCUUUCUCUCUGU
(((((...((((...((((((((............))))))))...)))).....(.(((.....))).)......)))))................. (-14.98 = -15.03 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:31 2006