Locus 5050

Sequence ID 2L_DroMel_CAF1
Location 14,481,162 – 14,481,260
Length 98
Max. P 0.965724
window8031 window8032

overview

Window 1

Location 14,481,162 – 14,481,260
Length 98
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.99
Mean single sequence MFE -29.80
Consensus MFE -23.98
Energy contribution -23.98
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.95
Structure conservation index 0.80
SVM decision value 0.82
SVM RNA-class probability 0.858094
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14481162 98 + 22407834
GUA----------------------UGUGUGCAUUUUAUGGCAGUGCCUGCGUUUUUGCGGCCAAACAUGAAGUGAAAAUUAUGCACACACAUAUGGCAAAUGUAUCGCAAUUGUUUUGC
(((----------------------(((((((((((((((...(.(((.(((....)))))))...)))))))))...........)))))))))(((((.((.....)).))))).... ( -27.20)
>DroSec_CAF1 5735 98 + 1
GUA----------------------UGUGUGCAUUUUAUGGCAGUGCCUGCGUUUUUGCGGCCAAACAUGAAGUGAAAAUUAUACACACACAUAUGGCAAAUGUAGCGCAAUUGUUUUGC
(((----------------------(((((((((((((((...(.(((.(((....)))))))...)))))))))...........))))))))).((.......))((((.....)))) ( -27.30)
>DroEre_CAF1 7244 98 + 1
GUA----------------------UGUGUGCAUUUUAUGGCAGUGCCUGCGUUUUUGCGGCCAAACAUGAAGUGAAAAUUAUACACACACAUAUGGCAAAUGUAGCGCAAUUGUUUUGC
(((----------------------(((((((((((((((...(.(((.(((....)))))))...)))))))))...........))))))))).((.......))((((.....)))) ( -27.30)
>DroYak_CAF1 1604 120 + 1
GUAUGUGCCGUACUAUGGGUACGUAUGUGUGCAUUUUAUGGCAGUGCCUGCGUUUUUGCGGCCAAACAUGAAGUGAAAAUUAUACACACACAUAUGGCAAAUGUAGCGCAAUUGUUUUGC
.(((.((((((((.....))))((((((((((((((((((...(.(((.(((....)))))))...)))))))))...........))))))))))))).)))....((((.....)))) ( -37.40)
>consensus
GUA______________________UGUGUGCAUUUUAUGGCAGUGCCUGCGUUUUUGCGGCCAAACAUGAAGUGAAAAUUAUACACACACAUAUGGCAAAUGUAGCGCAAUUGUUUUGC
.........................(((((((((((((((...(.(((.(((....)))))))...))))))))).........))))))((...(((((.((.....)).))))).)). (-23.98 = -23.98 +  -0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 14,481,162 – 14,481,260
Length 98
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.99
Mean single sequence MFE -25.38
Consensus MFE -21.34
Energy contribution -21.34
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.36
Structure conservation index 0.84
SVM decision value 1.59
SVM RNA-class probability 0.965724
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14481162 98 - 22407834
GCAAAACAAUUGCGAUACAUUUGCCAUAUGUGUGUGCAUAAUUUUCACUUCAUGUUUGGCCGCAAAAACGCAGGCACUGCCAUAAAAUGCACACA----------------------UAC
((((.....))))...............(((((((((((...........((....))(((((......)).)))...........)))))))))----------------------)). ( -24.20)
>DroSec_CAF1 5735 98 - 1
GCAAAACAAUUGCGCUACAUUUGCCAUAUGUGUGUGUAUAAUUUUCACUUCAUGUUUGGCCGCAAAAACGCAGGCACUGCCAUAAAAUGCACACA----------------------UAC
((((.....))))((.......))....(((((((((((...........((....))(((((......)).)))...........)))))))))----------------------)). ( -22.80)
>DroEre_CAF1 7244 98 - 1
GCAAAACAAUUGCGCUACAUUUGCCAUAUGUGUGUGUAUAAUUUUCACUUCAUGUUUGGCCGCAAAAACGCAGGCACUGCCAUAAAAUGCACACA----------------------UAC
((((.....))))((.......))....(((((((((((...........((....))(((((......)).)))...........)))))))))----------------------)). ( -22.80)
>DroYak_CAF1 1604 120 - 1
GCAAAACAAUUGCGCUACAUUUGCCAUAUGUGUGUGUAUAAUUUUCACUUCAUGUUUGGCCGCAAAAACGCAGGCACUGCCAUAAAAUGCACACAUACGUACCCAUAGUACGGCACAUAC
((((.....))))........((((...(((((((((((...........((....))(((((......)).)))...........))))))))))).((((.....))))))))..... ( -31.70)
>consensus
GCAAAACAAUUGCGCUACAUUUGCCAUAUGUGUGUGUAUAAUUUUCACUUCAUGUUUGGCCGCAAAAACGCAGGCACUGCCAUAAAAUGCACACA______________________UAC
(((.......((((........((((.(((((.(((.........)))..))))).))))........))))(((...)))......))).............................. (-21.34 = -21.34 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:37 2006