Locus 7967

Sequence ID	3L_DroMel_CAF1
Location	21,096,254 – 21,096,414
Length	160
Max. P	0.644620

overview

Window 9

Location	21,096,254 – 21,096,374
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.75
Mean single sequence MFE	-33.28
Consensus MFE	-29.65
Energy contribution	-29.90
Covariance contribution	0.25
Combinations/Pair	1.18
Mean z-score	-1.52
Structure conservation index	0.89
SVM decision value	0.23
SVM RNA-class probability	0.644620
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21096254 120 + 23771897
UGUCUGUAGAGAAGCGCUAGGGUGACAAUUCGUCAUCCUUAAAAUAUGGCAGAUAUCCGCAUGAUCCCCAUAUGCAGAGUAUGCUUUAUUGCCCUCCUUGAAUAUUUAUCGGACUGCGAA
.(((((..(((.((.((.((((((((.....))))))))...((((.((((....((.(((((.......))))).))...)))).)))))).)).)))..........)))))...... ( -30.60)
>DroSec_CAF1 146450 120 + 1
AGUCCGUAGGCAAGCGUUAGGGUGGAAAUUCGUCAUCCUUAAAAUAUGGCAGAUAUCCGCAUGAUCCCCAUAUGCAGAGUAUGCUUUAUUGCCCUCCUUGAAUAUUUAUCGGACUGCGAA
((((((((..((((.(..((((((((.((..(((((.........)))))..)).)))(((((.((..(....)..)).)))))......))))))))))..)).....))))))..... ( -31.20)
>DroEre_CAF1 68841 120 + 1
AGUCCGUAAACAAGCGUAAGGGUGGCAAUUCGUCAUCCUUAAAAUAUGGCAGAUUUCCGCAUGAUCCCCAUAUGCAGAGUAUGCUUUAUUGCCCUCCUUGAAUAUUUAUCGGACUGCGAA
((((((((((((((..((((((((((.....)))))))))).((((.((((...(((.(((((.......))))).)))..)))).))))......))))....)))).))))))..... ( -36.10)
>DroYak_CAF1 40674 120 + 1
AGUCCGUAGGCAAGCGUGAGGAUGGCAAUUCGUCAUACUUAAAAUAUGGCAGAUAUCCGCAUGAUCCCCACAUGCAGAGCAUGCUUUAUUGCCCUCCUUGAAUAUUUAUCGGACUGCGAA
((((((..........((((((.((((((..((((((.......))))))........(((((.......)))))((((....)))))))))).)))))).........))))))..... ( -35.21)
>consensus
AGUCCGUAGACAAGCGUUAGGGUGGCAAUUCGUCAUCCUUAAAAUAUGGCAGAUAUCCGCAUGAUCCCCAUAUGCAGAGUAUGCUUUAUUGCCCUCCUUGAAUAUUUAUCGGACUGCGAA
.(((((((((((((..((((((((((.....)))))))))).((((.((((....((.(((((.......))))).))...)))).))))......))))....)))).)))))...... (-29.65 = -29.90 +   0.25)

alignment

secondary structure

dotplot

Window 0

Location	21,096,294 – 21,096,414
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	94.54
Mean single sequence MFE	-26.03
Consensus MFE	-24.48
Energy contribution	-24.42
Covariance contribution	-0.06
Combinations/Pair	1.03
Mean z-score	-1.33
Structure conservation index	0.94
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21096294 120 - 23771897
GACCUAUAACACAUGUACAUAUACUCGUAUAUAGUAUAUAUUCGCAGUCCGAUAAAUAUUCAAGGAGGGCAAUAAAGCAUACUCUGCAUAUGGGGAUCAUGCGGAUAUCUGCCAUAUUUU
............((((((........)))))).(((.(((((((((((((((.......))..((((.((......))...))))........))))..))))))))).)))........ ( -26.50)
>DroSec_CAF1 146490 120 - 1
GACCUAUAACAAAUGUACAUAUACUCGUAUAUAGUAUAUAUUCGCAGUCCGAUAAAUAUUCAAGGAGGGCAAUAAAGCAUACUCUGCAUAUGGGGAUCAUGCGGAUAUCUGCCAUAUUUU
............((((((........)))))).(((.(((((((((((((((.......))..((((.((......))...))))........))))..))))))))).)))........ ( -26.50)
>DroEre_CAF1 68881 114 - 1
GACCUAUAACACAUGUACAUAU------AUAUUGUAUAUAUUCGCAGUCCGAUAAAUAUUCAAGGAGGGCAAUAAAGCAUACUCUGCAUAUGGGGAUCAUGCGGAAAUCUGCCAUAUUUU
..((((((....(((((((...------....)))))))....(((((((.............)))..((......)).....)))).))))))......((((....))))........ ( -24.12)
>DroYak_CAF1 40714 114 - 1
GACCUAUAACACAUGUACAUAU------AUAUAGUAUAUAUUCGCAGUCCGAUAAAUAUUCAAGGAGGGCAAUAAAGCAUGCUCUGCAUGUGGGGAUCAUGCGGAUAUCUGCCAUAUUUU
......................------((((.(((.(((((((((((((((.......))..(.((((((........)))))).)......))))..))))))))).))).))))... ( -27.00)
>consensus
GACCUAUAACACAUGUACAUAU______AUAUAGUAUAUAUUCGCAGUCCGAUAAAUAUUCAAGGAGGGCAAUAAAGCAUACUCUGCAUAUGGGGAUCAUGCGGAUAUCUGCCAUAUUUU
..((((((....(((((((((((....))))).))))))....(((((((.............)))..((......)).....)))).))))))......((((....))))........ (-24.48 = -24.42 +  -0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:20 2006