Locus 8629

Sequence ID	3L_DroMel_CAF1
Location	22,431,658 – 22,431,778
Length	120
Max. P	0.999730

overview

Window 8

Location	22,431,658 – 22,431,778
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	99.00
Mean single sequence MFE	-39.96
Consensus MFE	-39.40
Energy contribution	-39.64
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-2.75
Structure conservation index	0.99
SVM decision value	3.96
SVM RNA-class probability	0.999730
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22431658 120 + 23771897
AUUAUGGCGGAAAAAACCGCUCGACAGUUGCAAUGUUCGCUCUUUGUCUGCAUUCUGUUGCAUACUUUAUGGCGUUUUAAGUGCUGCGACGAUUUGCAAAUGCAGCAGAAUGUGUAGUUG
.....(((((......))))).(((((..((.......))...))))).((((((((((((((.......((((.......))))((((....))))..))))))))))))))....... ( -38.40)
>DroSec_CAF1 3542 120 + 1
AUUAUGGCGGAAAAAACCGCUCGACAGUUGCGAUGUUCGCUCUUUGUCUGCAUUCUGUUGCAUACUUUAUGGCGUUUUAAGUGCUGCGACGAUUUGCAAAUGCAGCAGAAUGUGUAGUUG
.....(((((......))))).(((((..(((.....)))...))))).((((((((((((((.......((((.......))))((((....))))..))))))))))))))....... ( -41.70)
>DroSim_CAF1 8510 120 + 1
AUUAUGGCGGAAAAAACCGCUCGACAGUUGCGAUGUUCGCUCUUUGUCUGCAUUCUGUUGCAUACUUUAUGGCGUUUUAAGUGCUGCGACGAUUUGCAAAUGCAGCAGAAUGUGUAGUUG
.....(((((......))))).(((((..(((.....)))...))))).((((((((((((((.......((((.......))))((((....))))..))))))))))))))....... ( -41.70)
>DroEre_CAF1 9585 120 + 1
AUUAUGGCGGAAAAAACCACUCGACAGUUGCGAUGUUCGCUCUUUGUCUGCAUUCUGUUGCAUACUUUAUAGCGUUUUAAGUGCUGCGACGAUUUGCAAAUGCAGCAGAAUGUGUAGUUG
.....((.((......)).)).(((((..(((.....)))...))))).((((((((((((((.......((((.......))))((((....))))..))))))))))))))....... ( -36.30)
>DroYak_CAF1 45271 120 + 1
AUUAUGGCGGAAAAAACCGCUCGACAGUUGCGAUGUUCGCUCUUUGUCUGCAUUCUGUUGCAUACUUUAUGGCGUUUUAAGUGCUGCGACGAUUUGCAAAUGCAGCAGAAUGUGUAGUUG
.....(((((......))))).(((((..(((.....)))...))))).((((((((((((((.......((((.......))))((((....))))..))))))))))))))....... ( -41.70)
>consensus
AUUAUGGCGGAAAAAACCGCUCGACAGUUGCGAUGUUCGCUCUUUGUCUGCAUUCUGUUGCAUACUUUAUGGCGUUUUAAGUGCUGCGACGAUUUGCAAAUGCAGCAGAAUGUGUAGUUG
.....(((((......))))).(((((..(((.....)))...))))).((((((((((((((.......((((.......))))((((....))))..))))))))))))))....... (-39.40 = -39.64 +   0.24)

alignment

secondary structure

dotplot

Window 9

Location	22,431,658 – 22,431,778
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	99.00
Mean single sequence MFE	-29.78
Consensus MFE	-29.78
Energy contribution	-29.46
Covariance contribution	-0.32
Combinations/Pair	1.06
Mean z-score	-2.14
Structure conservation index	1.00
SVM decision value	3.04
SVM RNA-class probability	0.998238
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22431658 120 - 23771897
CAACUACACAUUCUGCUGCAUUUGCAAAUCGUCGCAGCACUUAAAACGCCAUAAAGUAUGCAACAGAAUGCAGACAAAGAGCGAACAUUGCAACUGUCGAGCGGUUUUUUCCGCCAUAAU
........(((((((.(((((((((........)))).((((...........))))))))).)))))))..((((....((((...))))...))))(.((((......)))))..... ( -28.00)
>DroSec_CAF1 3542 120 - 1
CAACUACACAUUCUGCUGCAUUUGCAAAUCGUCGCAGCACUUAAAACGCCAUAAAGUAUGCAACAGAAUGCAGACAAAGAGCGAACAUCGCAACUGUCGAGCGGUUUUUUCCGCCAUAAU
........(((((((.(((((((((........)))).((((...........))))))))).)))))))..((((....(((.....)))...))))(.((((......)))))..... ( -30.40)
>DroSim_CAF1 8510 120 - 1
CAACUACACAUUCUGCUGCAUUUGCAAAUCGUCGCAGCACUUAAAACGCCAUAAAGUAUGCAACAGAAUGCAGACAAAGAGCGAACAUCGCAACUGUCGAGCGGUUUUUUCCGCCAUAAU
........(((((((.(((((((((........)))).((((...........))))))))).)))))))..((((....(((.....)))...))))(.((((......)))))..... ( -30.40)
>DroEre_CAF1 9585 120 - 1
CAACUACACAUUCUGCUGCAUUUGCAAAUCGUCGCAGCACUUAAAACGCUAUAAAGUAUGCAACAGAAUGCAGACAAAGAGCGAACAUCGCAACUGUCGAGUGGUUUUUUCCGCCAUAAU
.((((((.(((((((.(((((((((........))))..........(((....)))))))).)))))))..((((....(((.....)))...))))..)))))).............. ( -29.70)
>DroYak_CAF1 45271 120 - 1
CAACUACACAUUCUGCUGCAUUUGCAAAUCGUCGCAGCACUUAAAACGCCAUAAAGUAUGCAACAGAAUGCAGACAAAGAGCGAACAUCGCAACUGUCGAGCGGUUUUUUCCGCCAUAAU
........(((((((.(((((((((........)))).((((...........))))))))).)))))))..((((....(((.....)))...))))(.((((......)))))..... ( -30.40)
>consensus
CAACUACACAUUCUGCUGCAUUUGCAAAUCGUCGCAGCACUUAAAACGCCAUAAAGUAUGCAACAGAAUGCAGACAAAGAGCGAACAUCGCAACUGUCGAGCGGUUUUUUCCGCCAUAAU
........(((((((.(((((((((........)))).((((...........))))))))).)))))))..((((....(((.....)))...))))(.((((......)))))..... (-29.78 = -29.46 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:48 2006