Locus 294

Sequence ID 2L_DroMel_CAF1
Location 841,591 – 841,686
Length 95
Max. P 0.608628
window465 window466

overview

Window 5

Location 841,591 – 841,686
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 92.00
Mean single sequence MFE -13.73
Consensus MFE -11.35
Energy contribution -12.15
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.27
Structure conservation index 0.83
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 841591 95 + 22407834
AACACGUCCAUUAAAUUAAAUGCACAACAAGUUUAGCAUUGCCACUCAUUUCCCCCCGUCGAGGGUAUGCAAAUAUAAAUGCGAAACAAAAAACA
.....((.((((......)))).)).....((((.(((((......(((..(((........))).)))........))))).))))........ ( -14.34)
>DroSec_CAF1 7005 94 + 1
AACACGUCCAUUAAAUUAAAUGCACAACAAGUUUAGCAUUCCCACUCACUUCC-CCCGUCGAGGGUAUGCAAAUAUAAAUGCGAAACAAAAAACA
.....((.((((......)))).)).....((((.(((((.............-(((.....)))............))))).))))........ ( -13.11)
>DroSim_CAF1 7677 95 + 1
AACACGUCCAUUAAAUUAAAUGCACAACAAGUUUAGCAUUGCCACUCACUUCCCCCCGUCGAGGGUAUGCAAAUAUAAAUGCGAAACAAAAAACA
.....((.((((......)))).)).....((((.((((((((.(((((........)).)))))))...........)))).))))........ ( -14.80)
>DroEre_CAF1 6666 95 + 1
AGCACGUCCAUUCGAUUAAAUGCACAACAAGUUUAGCACUGCCAUUCACUUCCCCCCGUCGAGGGUAUGCAAAUAUAAAUGCGAAACAAAAAACA
.(((.((.((((......)))).)).....((((.(((.((((.(((((........)).)))))))))))))).....)))............. ( -14.30)
>DroYak_CAF1 5793 84 + 1
AACACGUCCAUUAAAUUAAAUGCACAACAAGUUCAGCA-----------UUCCCCCCGUCGAGGGUAUGCAAAUAUAAAUGCGAAACAAAAAACA
.....((.((((......)))).)).....(((..(((-----------((...(((.....)))(((....)))..)))))..)))........ ( -12.10)
>consensus
AACACGUCCAUUAAAUUAAAUGCACAACAAGUUUAGCAUUGCCACUCACUUCCCCCCGUCGAGGGUAUGCAAAUAUAAAUGCGAAACAAAAAACA
.....((.((((......)))).)).....((((.(((((..............(((.....)))............))))).))))........ (-11.35 = -12.15 +   0.80) 

alignment

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secondary structure

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dotplot

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Window 6

Location 841,591 – 841,686
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 92.00
Mean single sequence MFE -23.24
Consensus MFE -18.70
Energy contribution -20.50
Covariance contribution 1.80
Combinations/Pair 1.11
Mean z-score -1.43
Structure conservation index 0.80
SVM decision value 0.15
SVM RNA-class probability 0.608628
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 841591 95 - 22407834
UGUUUUUUGUUUCGCAUUUAUAUUUGCAUACCCUCGACGGGGGGAAAUGAGUGGCAAUGCUAAACUUGUUGUGCAUUUAAUUUAAUGGACGUGUU
(((..((..(((((((........)))...((((.....))))))))..))..)))..............((.((((......)))).))..... ( -22.60)
>DroSec_CAF1 7005 94 - 1
UGUUUUUUGUUUCGCAUUUAUAUUUGCAUACCCUCGACGGG-GGAAGUGAGUGGGAAUGCUAAACUUGUUGUGCAUUUAAUUUAAUGGACGUGUU
........((((.((((((.((((..(...((((.....))-))..)..)))).)))))).)))).....((.((((......)))).))..... ( -25.00)
>DroSim_CAF1 7677 95 - 1
UGUUUUUUGUUUCGCAUUUAUAUUUGCAUACCCUCGACGGGGGGAAGUGAGUGGCAAUGCUAAACUUGUUGUGCAUUUAAUUUAAUGGACGUGUU
........((((.(((((..((((..(...(((((....)))))..)..))))..))))).)))).....((.((((......)))).))..... ( -24.30)
>DroEre_CAF1 6666 95 - 1
UGUUUUUUGUUUCGCAUUUAUAUUUGCAUACCCUCGACGGGGGGAAGUGAAUGGCAGUGCUAAACUUGUUGUGCAUUUAAUCGAAUGGACGUGCU
........((((.(((((..((((..(...(((((....)))))..)..))))..))))).))))..(((((.(((((....))))).))).)). ( -25.00)
>DroYak_CAF1 5793 84 - 1
UGUUUUUUGUUUCGCAUUUAUAUUUGCAUACCCUCGACGGGGGGAA-----------UGCUGAACUUGUUGUGCAUUUAAUUUAAUGGACGUGUU
............(((..........((((.(((((....))))).)-----------)))..........((.((((......)))).))))).. ( -19.30)
>consensus
UGUUUUUUGUUUCGCAUUUAUAUUUGCAUACCCUCGACGGGGGGAAGUGAGUGGCAAUGCUAAACUUGUUGUGCAUUUAAUUUAAUGGACGUGUU
........((((.(((((..(((((((...(((((....)))))..)))))))..))))).)))).....((.((((......)))).))..... (-18.70 = -20.50 +   1.80) 

alignment

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secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:14 2006