Locus 5534

Sequence ID	3R_DroMel_CAF1
Location	14,593,823 – 14,593,948
Length	125
Max. P	0.925776

overview

Window 5

Location	14,593,823 – 14,593,919
Length	96
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	80.46
Mean single sequence MFE	-31.33
Consensus MFE	-21.98
Energy contribution	-22.23
Covariance contribution	0.25
Combinations/Pair	1.14
Mean z-score	-2.40
Structure conservation index	0.70
SVM decision value	1.17
SVM RNA-class probability	0.925776
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14593823 96 + 27905053
CUACU-GCGAC----------UCCAUGACCAAGAGUUGCUUUCCAUGGCGGGGCAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAU
.....-(((((----------((.........))))))).......(((((((((((....((((....)))).)))))))))))((((..((....))..)))).. ( -36.80)
>DroSec_CAF1 8464 97 + 1
CUACGGGCGAC----------UCCGUGACCAAGAGUUGCCAUCCAUGGCGGGGCAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAU
.....((((((----------((.........))))))))......(((((((((((....((((....)))).)))))))))))((((..((....))..)))).. ( -40.60)
>DroSim_CAF1 8433 88 + 1
CUAC-------------------CAUGACCAAGAGUUGCCAUCCAUGGCGGGGCAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAU
....-------------------.(((.(((((....((((....((((((((((((....((((....)))).))))))))))))...)))).....))))).))) ( -33.30)
>DroEre_CAF1 8435 94 + 1
CCACU-ACGUC----------UCCAAGCCCA--AGUUGCCAUCCUCGACGGGGCAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAU
.....-.....----------.((((((...--((..((((..(.((.(((((((((....((((....)))).))))))))).)))..))))..)))))))).... ( -27.20)
>DroYak_CAF1 9384 94 + 1
CCACU-UCGUC----------UCCAAGUCCA--GUUUGCUAUCCUCGGCGGGACAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAU
.....-.....----------.(((((..((--(...((((..(.((((((..((((....((((....)))).))))..)))))))..))))..)))))))).... ( -25.00)
>DroPer_CAF1 7852 98 + 1
AGUCU-GAGUCUGAGUCCCAGUCCAAGUCCA--AGUU------CCAGCCGGAGCACGGACAAAUCUAUAGAUUAUUUUCUCUGCCUCCUUGGCUUUUGUUUGGCCAU
.....-(((.(.(((...........((((.--.(((------((....)))))..)))).((((....)))).....))).).)))..(((((.......))))). ( -25.10)
>consensus
CUACU_GCGUC__________UCCAAGACCA__AGUUGCCAUCCAUGGCGGGGCAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAU
.............................................((((((((((((....((((....)))).))))))))))))...(((((.......))))). (-21.98 = -22.23 +   0.25)

alignment

secondary structure

dotplot

Window 6

Location	14,593,850 – 14,593,948
Length	98
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	83.68
Mean single sequence MFE	-29.90
Consensus MFE	-25.32
Energy contribution	-26.52
Covariance contribution	1.20
Combinations/Pair	1.18
Mean z-score	-2.42
Structure conservation index	0.85
SVM decision value	1.17
SVM RNA-class probability	0.925090
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14593850 98 + 27905053
CUUUCCAUGGCGGGGCAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAUUUGUUAGCGACUCAUUGUUGUUGU-UG-UGC
........(((((((((((....((((....)))).)))))))))))((((..((....))..))))......(((((((.....))))))).-..-... ( -33.90)
>DroSim_CAF1 8452 98 + 1
CCAUCCAUGGCGGGGCAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAUUUGUUAGCGACUCAUUGUUGUUGU-UG-UGC
........(((((((((((....((((....)))).)))))))))))((((..((....))..))))......(((((((.....))))))).-..-... ( -33.90)
>DroEre_CAF1 8460 93 + 1
CCAUCCUCGACGGGGCAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAUUUGUUAGCGACUCGUUGUUGUUGU-------
.((.(..((((((((((((....((((....)))).)))))..(((..((.(((((.......)))))...))..))).)))))))..).)).------- ( -27.40)
>DroYak_CAF1 9409 93 + 1
CUAUCCUCGGCGGGACAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAUUUGUUAGCGACUCAUUGUUGUUGU-------
........(((((..((((....((((....)))).))))..)))))((((..((....))..))))......(((((((.....))))))).------- ( -28.70)
>DroAna_CAF1 7893 95 + 1
----CUCCGGCAGGGCAAGGACGAAUCUAUAGAUUAUUUGCUCUGUCGGCUCUGCUUUUGUUUGGCCAUUUGUUAGCGUCUCAUUGUUGCUGCUUC-UGU
----....(((((((((((....((((....)))).)))))))))))((((..((....))..))))......(((((.(.....).)))))....-... ( -30.30)
>DroPer_CAF1 7886 94 + 1
-----CCAGCCGGAGCACGGACAAAUCUAUAGAUUAUUUUCUCUGCCUCCUUGGCUUUUGUUUGGCCAUUUGUUUGCUCUGCAUUGUUGUUGC-UGCUGU
-----.((((.((((((..((((((....((((........))))......(((((.......)))))))))))))))))(((.......)))-.)))). ( -25.20)
>consensus
C_AUCCACGGCGGGGCAAGGACAAAUCUAUAGAUUAUUUGCUCUGCCGGCUUGGCUUUUGUUUGGCCAUUUGUUAGCGACUCAUUGUUGUUGU_UG_UG_
........(((((((((((....((((....)))).)))))))))))((((..((....))..))))......(((((((.....)))))))........ (-25.32 = -26.52 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:29 2006