Locus 7186

Sequence ID	2L_DroMel_CAF1
Location	20,134,229 – 20,134,349
Length	120
Max. P	0.660677

overview

Window 8

Location	20,134,229 – 20,134,349
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.89
Mean single sequence MFE	-34.36
Consensus MFE	-29.56
Energy contribution	-29.75
Covariance contribution	0.19
Combinations/Pair	1.10
Mean z-score	-1.55
Structure conservation index	0.86
SVM decision value	0.12
SVM RNA-class probability	0.592819
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20134229 120 + 22407834
GUGGGGUAAAUCUACCUGGGAUAUUUGCACAACUUUCCGCGUUUUAAGGAAUACUCUGUACAUAUUUAAGAGCCAUUCGGUUGGAAGGCUCUUGAGCAGAGAUGGGAUUUAAUUCUGGCA
((.((((((((((.(((..((....(((..........))).))..)))....((((((......(((((((((.(((.....))))))))))))))))))...)))))))..))).)). ( -34.70)
>DroSec_CAF1 45507 120 + 1
GUGGGGUAAAUCUACCUGGGAUAUUUGCACAACUUUCCGCCUUUUAAGGAAUGCUCUGUACAUAUUUAAGAGCCAUUCGAGUGGAAGGCUCUUGAGCAGAGAUGGGAUUUAAUUCUGGCA
...(((((....)))))((((.............))))(((..(((((.....((((((......(((((((((.(((.....))))))))))))))))))......)))))....))). ( -34.92)
>DroEre_CAF1 22000 120 + 1
GUGGGGUAAAUCUACCUGGGAUAUUUGCACAACUUUCCGCCUUUUAAGGAACACUCUGUACAUAUUUAAGAGCCAUUCGAAUGGAAGGCUCUUGAGCAGAGAUGAGAUUUAAUUCUGCCG
(..((((((((((....((((.............)))).(((....)))..((((((((......(((((((((.(((.....)))))))))))))))))).)))))))).))))..).. ( -34.62)
>DroYak_CAF1 4546 120 + 1
GUGGGGUAAAUCUACCUGGGAUAUUUGCUCAACUUUCCGCCUUUUAAGGAAUACUCUGCACAUAUCUAAGAGCCAUUCGAAUGGAAGGCUCUUGAGAAGAGAUGAGAUUUAAUUUUGCCG
(..((((((((((..((.((((((.(((......((((.........))))......))).))))))(((((((.(((.....))))))))))......))...)))))).))))..).. ( -33.20)
>consensus
GUGGGGUAAAUCUACCUGGGAUAUUUGCACAACUUUCCGCCUUUUAAGGAAUACUCUGUACAUAUUUAAGAGCCAUUCGAAUGGAAGGCUCUUGAGCAGAGAUGAGAUUUAAUUCUGCCA
(((((((((((((.((((((((((.((((.....((((.........)))).....)))).))))))(((((((.(((.....))))))))))...))).)...)))))).))))))).. (-29.56 = -29.75 +   0.19)

alignment

secondary structure

dotplot

Window 9

Location	20,134,229 – 20,134,349
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	93.89
Mean single sequence MFE	-27.98
Consensus MFE	-24.73
Energy contribution	-25.48
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-1.56
Structure conservation index	0.88
SVM decision value	0.27
SVM RNA-class probability	0.660677
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20134229 120 - 22407834
UGCCAGAAUUAAAUCCCAUCUCUGCUCAAGAGCCUUCCAACCGAAUGGCUCUUAAAUAUGUACAGAGUAUUCCUUAAAACGCGGAAAGUUGUGCAAAUAUCCCAGGUAGAUUUACCCCAC
....................((((((.((((((((((.....))).))))))).....(((((((....((((.........))))..))))))).........)))))).......... ( -26.60)
>DroSec_CAF1 45507 120 - 1
UGCCAGAAUUAAAUCCCAUCUCUGCUCAAGAGCCUUCCACUCGAAUGGCUCUUAAAUAUGUACAGAGCAUUCCUUAAAAGGCGGAAAGUUGUGCAAAUAUCCCAGGUAGAUUUACCCCAC
....................((((((.((((((((((.....))).))))))).....((((((..((.((((.........)))).)))))))).........)))))).......... ( -26.90)
>DroEre_CAF1 22000 120 - 1
CGGCAGAAUUAAAUCUCAUCUCUGCUCAAGAGCCUUCCAUUCGAAUGGCUCUUAAAUAUGUACAGAGUGUUCCUUAAAAGGCGGAAAGUUGUGCAAAUAUCCCAGGUAGAUUUACCCCAC
.((((((.............)))))).((((((((((.....))).))))))).....(((((((....((((.........))))..))))))).........((((....)))).... ( -29.82)
>DroYak_CAF1 4546 120 - 1
CGGCAAAAUUAAAUCUCAUCUCUUCUCAAGAGCCUUCCAUUCGAAUGGCUCUUAGAUAUGUGCAGAGUAUUCCUUAAAAGGCGGAAAGUUGAGCAAAUAUCCCAGGUAGAUUUACCCCAC
.((......(((((((.((((......((((((((((.....))).))))))).(((((.(((..((..((((.........))))..))..))).)))))..)))))))))))..)).. ( -28.60)
>consensus
CGCCAGAAUUAAAUCCCAUCUCUGCUCAAGAGCCUUCCAUUCGAAUGGCUCUUAAAUAUGUACAGAGUAUUCCUUAAAAGGCGGAAAGUUGUGCAAAUAUCCCAGGUAGAUUUACCCCAC
.........(((((((.((((......((((((((((.....))).))))))).....(((((((....((((.........))))..)))))))........)))))))))))...... (-24.73 = -25.48 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:30 2006