Locus 2785

Sequence ID	2L_DroMel_CAF1
Location	7,888,531 – 7,888,691
Length	160
Max. P	0.702639

overview

Window 5

Location	7,888,531 – 7,888,651
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.25
Mean single sequence MFE	-36.27
Consensus MFE	-28.41
Energy contribution	-28.45
Covariance contribution	0.04
Combinations/Pair	1.14
Mean z-score	-1.66
Structure conservation index	0.78
SVM decision value	0.15
SVM RNA-class probability	0.609103
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7888531 120 + 22407834
GCCCUUGAAGAAAGCUGCGUUGAUCAUGACCGCACUUUCAUCGGGCGUCAAGUCACUGGGUAUUAUAAUGUCUUUCACAUUAUCUAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCA
......((.(((((.((((((......)).))))))))).))(((((.(.((.(((((((((.....((((.....))))))))))))).)).).)((((........))))...)))). ( -33.70)
>DroSec_CAF1 61161 120 + 1
GCCCUUGAAGAAAGCUGCGUUGAUCAUGACCCCACUUUCAUCGGGCGUCAAGUCACUGGGUGUUAGAAUGUAUUUCACAUUAUCCAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCA
((...((((((..(.(((.((((((.(((((((.........))).))))((.(((((((((...(((.....)))....))))))))).))))))))))).)...)).))))..))... ( -34.20)
>DroSim_CAF1 62056 120 + 1
GCCCUUGAAGAAAGCUGCGUUGAUCAUGACCGCACUUUCAUCGGGCGUCAAGUCACUGGGUGUUAGAAUGUAUUUCACAUUAUCCAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCA
......((.(((((.((((((......)).))))))))).))(((((.(.((.(((((((((...(((.....)))....))))))))).)).).)((((........))))...)))). ( -36.90)
>DroEre_CAF1 61246 120 + 1
GCCCUUGAAGAAAGCUGCGUUGAUCAUGACCGCACUUUCAUCGGGCGCCAGAUCACUGGGUGUCAUAAUAGCUUUCACAUUAUCCAGUGUCUGGUCGAGCACCCAAUCGUUUAUAAUCCA
((((..((.(((((.((((((......)).))))))))).))))))((((((.(((((((((..................)))))))))))))))(((........)))........... ( -39.17)
>DroYak_CAF1 62568 120 + 1
GCCCUUGAAGAAAGCUGCGUUGAUCAUGACCGCACUUUCAUCGGGGGUCAAGUCACUGGGUGUUACAAUGUCUUUCACAUUAUCGAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCU
((((((((.(((((.((((((......)).))))))))).))))))))........(((((((...(((((.....))))).((((.(....).)))))))))))............... ( -37.40)
>consensus
GCCCUUGAAGAAAGCUGCGUUGAUCAUGACCGCACUUUCAUCGGGCGUCAAGUCACUGGGUGUUAGAAUGUCUUUCACAUUAUCCAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCA
((((..((.(((((.((((((......)).))))))))).))))))....((.(((((((((..................))))))))).))(((.((((........))))...))).. (-28.41 = -28.45 +   0.04)

alignment

secondary structure

dotplot

Window 6

Location	7,888,571 – 7,888,691
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.25
Mean single sequence MFE	-37.61
Consensus MFE	-30.35
Energy contribution	-30.51
Covariance contribution	0.16
Combinations/Pair	1.15
Mean z-score	-1.51
Structure conservation index	0.81
SVM decision value	0.36
SVM RNA-class probability	0.702639
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7888571 120 + 22407834
UCGGGCGUCAAGUCACUGGGUAUUAUAAUGUCUUUCACAUUAUCUAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCAGGCUGCCUUCAAUCGAUCGGCCAGCUUAAUGGCUUCUGCC
..(((((.(.((.(((((((((.....((((.....))))))))))))).)).).)((((........))))...))))((((((((.((....))..)).))))))...(((....))) ( -35.70)
>DroSec_CAF1 61201 120 + 1
UCGGGCGUCAAGUCACUGGGUGUUAGAAUGUAUUUCACAUUAUCCAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCAGGCUGCCUUCGAUCGAUCGGCCAGAUUAAUGGCCUCUGCC
..(((.((((...(((((((((...(((.....)))....)))))))))(((((((((.....(.((((....((((....))))....)))).).)))))))))....))))))).... ( -40.90)
>DroSim_CAF1 62096 120 + 1
UCGGGCGUCAAGUCACUGGGUGUUAGAAUGUAUUUCACAUUAUCCAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCAGGCUGCCUUCGAUCUAUCGGCCAGAUUAAUGGCCUCUGCC
..(((.((((...(((((((((...(((.....)))....)))))))))(((((((((.......((((....((((....))))....))))...)))))))))....))))))).... ( -40.80)
>DroEre_CAF1 61286 120 + 1
UCGGGCGCCAGAUCACUGGGUGUCAUAAUAGCUUUCACAUUAUCCAGUGUCUGGUCGAGCACCCAAUCGUUUAUAAUCCAGGCUGCCUUUGAUCGAUCGGCCAGCUUAAUAGCCUCUGCC
..((((((((((.(((((((((..................)))))))))))))))(((........)))..........((((((((...........)).))))))....))))..... ( -35.47)
>DroYak_CAF1 62608 120 + 1
UCGGGGGUCAAGUCACUGGGUGUUACAAUGUCUUUCACAUUAUCGAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCUUGCUGCUUUUGAUCGAUCGGCCAACUUAAUGGCCUCUGCC
.(((((((((((.((((.((((.....((((.....)))))))).)))).))((((((.....(.((((....((((....))))....)))).).)))))).......))))))))).. ( -35.20)
>consensus
UCGGGCGUCAAGUCACUGGGUGUUAGAAUGUCUUUCACAUUAUCCAGUGUCUGGUCGAGCACCCAAUCGUUUAUAGCCCAGGCUGCCUUCGAUCGAUCGGCCAGCUUAAUGGCCUCUGCC
.((((.((((...(((((((((..................))))))))).((((((((.......((((....((((....))))....))))...)))))))).....)))).)))).. (-30.35 = -30.51 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:10 2006