Locus 7089

Sequence ID	3R_DroMel_CAF1
Location	18,700,382 – 18,700,492
Length	110
Max. P	0.909182

overview

Window 6

Location	18,700,382 – 18,700,492
Length	110
Sequences	3
Columns	119
Reading direction	forward
Mean pairwise identity	78.45
Mean single sequence MFE	-32.89
Consensus MFE	-21.50
Energy contribution	-21.07
Covariance contribution	-0.43
Combinations/Pair	1.23
Mean z-score	-1.79
Structure conservation index	0.65
SVM decision value	0.58
SVM RNA-class probability	0.787689
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18700382 110 + 27905053
UUGCCCUGGCUGUUAGAGCCGGUAUUGUUGUCAUGUUUGUUGUGCGUUUUGCGCAGUUUGUUUGUCCAAAAGGCAAUUUGAG------UGGCAGCGUUUUGGCUGCGGGUAUAGUG---
.(((((.((((.....))))(((..(((((((((........(((.(((((.((((.....)))).))))).)))......)------)))))))).....)))..))))).....--- ( -36.64)
>DroYak_CAF1 133237 113 + 1
CAGCACUGGUUGUUAGAGUCGGUAUUGUUAUCCUGUUUGUUGUGCGUUUUGCGCAGUUUGUUUGUCCAAAAGGCAAUUUGAG------UGGCAGCGUUUUGGCUGCGGGUGUAGUGUGU
..(((((.((.(((((((.(((((....))))(((((.....(((.(((((.((((.....)))).))))).))).......------.))))).)))))))).)).)))))....... ( -30.12)
>DroAna_CAF1 123197 107 + 1
UUGUUUUGGCUGUUAGUGCCGGUAUUAUUGCUUUGUUUGUUGUACGUUUUGCGCAGUUUGUUUGCCCAAAAGGCAAUUUCAGAGAAGUUGGUAGCGUUUUGGCAGCG------------
........((((((((...((.(((((...(((((...(((((...(((((.((((.....)))).))))).)))))..)))))....))))).))..)))))))).------------ ( -31.90)
>consensus
UUGCACUGGCUGUUAGAGCCGGUAUUGUUGUCAUGUUUGUUGUGCGUUUUGCGCAGUUUGUUUGUCCAAAAGGCAAUUUGAG______UGGCAGCGUUUUGGCUGCGGGU_UAGUG___
.....(((((.......)))))....................(((.(((((.((((.....)))).))))).)))...............(((((......)))))............. (-21.50 = -21.07 +  -0.43)

alignment

secondary structure

dotplot

Window 7

Location	18,700,382 – 18,700,492
Length	110
Sequences	3
Columns	119
Reading direction	reverse
Mean pairwise identity	78.45
Mean single sequence MFE	-19.60
Consensus MFE	-11.32
Energy contribution	-12.43
Covariance contribution	1.11
Combinations/Pair	1.06
Mean z-score	-2.43
Structure conservation index	0.58
SVM decision value	1.06
SVM RNA-class probability	0.909182
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18700382 110 - 27905053
---CACUAUACCCGCAGCCAAAACGCUGCCA------CUCAAAUUGCCUUUUGGACAAACAAACUGCGCAAAACGCACAACAAACAUGACAACAAUACCGGCUCUAACAGCCAGGGCAA
---.......((((((((......)))))..------.(((..(((((....)).)))......((((.....)))).........)))..........((((.....)))).)))... ( -24.30)
>DroYak_CAF1 133237 113 - 1
ACACACUACACCCGCAGCCAAAACGCUGCCA------CUCAAAUUGCCUUUUGGACAAACAAACUGCGCAAAACGCACAACAAACAGGAUAACAAUACCGACUCUAACAACCAGUGCUG
.((((((......(((((......)))))..------.........(((((((......)))).((((.....))))........)))........................)))).)) ( -17.50)
>DroAna_CAF1 123197 107 - 1
------------CGCUGCCAAAACGCUACCAACUUCUCUGAAAUUGCCUUUUGGGCAAACAAACUGCGCAAAACGUACAACAAACAAAGCAAUAAUACCGGCACUAACAGCCAAAACAA
------------.(((((......))..................(((.(((((.(((.......))).))))).)))..........))).........(((.......)))....... ( -17.00)
>consensus
___CACUA_ACCCGCAGCCAAAACGCUGCCA______CUCAAAUUGCCUUUUGGACAAACAAACUGCGCAAAACGCACAACAAACAAGACAACAAUACCGGCUCUAACAGCCAGAGCAA
.............(((((......)))))..............(((((....)).)))......((((.....))))......................(((.......)))....... (-11.32 = -12.43 +   1.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:06 2006