Locus 7899

Sequence ID 3R_DroMel_CAF1
Location 21,177,036 – 21,177,131
Length 95
Max. P 0.955527
window12718 window12719

overview

Window 8

Location 21,177,036 – 21,177,131
Length 95
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 90.60
Mean single sequence MFE -21.64
Consensus MFE -16.77
Energy contribution -17.05
Covariance contribution 0.28
Combinations/Pair 1.08
Mean z-score -2.35
Structure conservation index 0.77
SVM decision value 1.46
SVM RNA-class probability 0.955527
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21177036 95 + 27905053
UAAGAAGUUUGAUUGAUCAAAAGUGAUCUUACUUUUUUUCCUGUGUACACGGGAAGCAGGCAUUUGGA-AA--AAACAUGGGAAAAACAAAUCAAACU
.....((((((((((((((....)))))......((((((((((((.....(....).....(((...-.)--))))))))))))))..))))))))) ( -23.80)
>DroSec_CAF1 3726 96 + 1
UAAGUAGUUUGGGUGAUCAAAAGUGAUCUUAAUU-UUUUCCGGUGUACAUGGGAAGCAGGCAUUUGGA-AAAAAAACAUGAGAAAAACAAAUCAAACU
.....(((((((..(((((....)))))....((-(((((((((((...((.....)).))).)))))-))))).................))))))) ( -20.20)
>DroSim_CAF1 3726 96 + 1
UAAGAAGUUUGAGUGAUCAAAAGUGAUCUUAUUU-UUUUCCUGUGUACAUGGGAAGCAGGCAUUUGGA-AAAAAAACAUGGGAAAAACAAAUCAAACU
.....(((((((..(((((....)))))...(((-((((((.((((...((.....)).))))..)))-))))))................))))))) ( -22.00)
>DroEre_CAF1 3646 95 + 1
UAAGAAGUUUGAGUGAUCAAAAGCGAUCUUCUUU-UUUUCCUGUGUACAUGGGAAGCAAGCAUUUGGA--AAAAACCAUGGGAAAAACAAAUCAAACU
.....(((((((..((((......)))).....(-((((((((((......(....).....(((...--.)))..)))))))))))....))))))) ( -19.40)
>DroYak_CAF1 3674 97 + 1
AAGAAAGUUUGAGCGAUCGAAAGUGAUCUUAUUU-UUUUCCUGUGUACAUGGGAAGCAGGCAGUUGGACAAAAAAACAUGGGAAAAACAAAUCAAACU
.....(((((((..(((((....))))).....(-(((((((((((...((...(((.....)))...)).....))))))))))))....))))))) ( -22.80)
>consensus
UAAGAAGUUUGAGUGAUCAAAAGUGAUCUUAUUU_UUUUCCUGUGUACAUGGGAAGCAGGCAUUUGGA_AAAAAAACAUGGGAAAAACAAAUCAAACU
.....(((((((..((((......)))).......(((((((((((..........(((....))).........))))))))))).....))))))) (-16.77 = -17.05 +   0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,177,036 – 21,177,131
Length 95
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 90.60
Mean single sequence MFE -17.70
Consensus MFE -12.55
Energy contribution -12.79
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -2.24
Structure conservation index 0.71
SVM decision value 0.31
SVM RNA-class probability 0.683285
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21177036 95 - 27905053
AGUUUGAUUUGUUUUUCCCAUGUUU--UU-UCCAAAUGCCUGCUUCCCGUGUACACAGGAAAAAAAGUAAGAUCACUUUUGAUCAAUCAAACUUCUUA
(((((((((.............(((--((-(((...((..(((.......)))..)))))))))).....(((((....))))))))))))))..... ( -19.10)
>DroSec_CAF1 3726 96 - 1
AGUUUGAUUUGUUUUUCUCAUGUUUUUUU-UCCAAAUGCCUGCUUCCCAUGUACACCGGAAAA-AAUUAAGAUCACUUUUGAUCACCCAAACUACUUA
((((((..................(((((-(((...(((.((.....)).)))....))))))-))....(((((....)))))...))))))..... ( -16.40)
>DroSim_CAF1 3726 96 - 1
AGUUUGAUUUGUUUUUCCCAUGUUUUUUU-UCCAAAUGCCUGCUUCCCAUGUACACAGGAAAA-AAAUAAGAUCACUUUUGAUCACUCAAACUUCUUA
(((((((................((((((-(((...((..(((.......)))..))))))))-)))...(((((....)))))..)))))))..... ( -18.10)
>DroEre_CAF1 3646 95 - 1
AGUUUGAUUUGUUUUUCCCAUGGUUUUU--UCCAAAUGCUUGCUUCCCAUGUACACAGGAAAA-AAAGAAGAUCGCUUUUGAUCACUCAAACUUCUUA
((((((((((.(((((((..(((.....--.)))..((..(((.......)))..))))))))-).))).(((((....)))))..)))))))..... ( -18.90)
>DroYak_CAF1 3674 97 - 1
AGUUUGAUUUGUUUUUCCCAUGUUUUUUUGUCCAACUGCCUGCUUCCCAUGUACACAGGAAAA-AAAUAAGAUCACUUUCGAUCGCUCAAACUUUCUU
(((((((.............(((((((((......(((..(((.......)))..))).))))-))))).((((......))))..)))))))..... ( -16.00)
>consensus
AGUUUGAUUUGUUUUUCCCAUGUUUUUUU_UCCAAAUGCCUGCUUCCCAUGUACACAGGAAAA_AAAUAAGAUCACUUUUGAUCACUCAAACUUCUUA
(((((((.....((((((..(((.........((......))..........)))..)))))).......((((......))))..)))))))..... (-12.55 = -12.79 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:30 2006