Locus 5674

Sequence ID X_DroMel_CAF1
Location 14,678,778 – 14,678,875
Length 97
Max. P 0.783420
window9214 window9215

overview

Window 4

Location 14,678,778 – 14,678,875
Length 97
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 90.72
Mean single sequence MFE -34.10
Consensus MFE -27.76
Energy contribution -28.07
Covariance contribution 0.31
Combinations/Pair 1.12
Mean z-score -1.78
Structure conservation index 0.81
SVM decision value 0.54
SVM RNA-class probability 0.773393
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14678778 97 + 22224390
CGUUCCAUACACGUCGGUGGGUUGCUU-UUGUUUUCUGUGGCUCUCUCAGUGGCUGUUAAUCCAGCGCCACCGAUGCCAAACGAGGCCCCACCCACCC
...............(((((((.((((-(.(((.....((((....((.(((((.(((.....)))))))).)).))))))))))))...))))))). ( -32.10)
>DroSec_CAF1 11553 96 + 1
CGUUCCAUACAUGUCGGUGGGUUGCCU-UUGUUGU-UGUGGCUCUCUCAGUGGCUGUUAAUCCAGCGCCACCGACGCCAAACGCGGCCCCACCCACCC
............((.((((((((((.(-(((.(((-((((((...(.....)((((......)))))))).))))).)))).)))).)))))).)).. ( -34.90)
>DroEre_CAF1 12662 96 + 1
CGCUUCAUACACGUCGGUGGGCUGCCU-UUGUUGU-UGUGGCUCUCUCAGUGGCUGUUAAUCCAGCGCCACCGCCGCCAAAUGGGGCCCCGCCCACCC
...............(((((((.((((-(..(((.-.(((((.......(((((.(((.....)))))))).))))))))..)))))...))))))). ( -35.70)
>DroYak_CAF1 10443 97 + 1
CGCUCCAUACACGUCGGUGGGUUGCCUUUUGUUGU-UGUGACGCUCUCAGUGGCUGUUAAUCCAGCGCCAACGUCGCCAAAUGAGGCCCCACCCACCC
...............(((((((.(((((...(((.-.((((((.......((((.(((.....))))))).)))))))))..)))))...))))))). ( -33.70)
>consensus
CGCUCCAUACACGUCGGUGGGUUGCCU_UUGUUGU_UGUGGCUCUCUCAGUGGCUGUUAAUCCAGCGCCACCGACGCCAAACGAGGCCCCACCCACCC
...............(((((((.((((.(((.((...(((((...(.....)((((......)))))))))...)).)))...))))...))))))). (-27.76 = -28.07 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,678,778 – 14,678,875
Length 97
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 90.72
Mean single sequence MFE -37.12
Consensus MFE -33.01
Energy contribution -32.95
Covariance contribution -0.06
Combinations/Pair 1.09
Mean z-score -1.60
Structure conservation index 0.89
SVM decision value 0.56
SVM RNA-class probability 0.783420
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14678778 97 - 22224390
GGGUGGGUGGGGCCUCGUUUGGCAUCGGUGGCGCUGGAUUAACAGCCACUGAGAGAGCCACAGAAAACAA-AAGCAACCCACCGACGUGUAUGGAACG
..((.(((((((((......))).((.(((((((((......))))...(....).))))).))......-......)))))).))............ ( -36.00)
>DroSec_CAF1 11553 96 - 1
GGGUGGGUGGGGCCGCGUUUGGCGUCGGUGGCGCUGGAUUAACAGCCACUGAGAGAGCCACA-ACAACAA-AGGCAACCCACCGACAUGUAUGGAACG
.(((((((...(((..(((((((.((((((((..((......))))))))))....))))..-..)))..-.))).)))))))............... ( -39.50)
>DroEre_CAF1 12662 96 - 1
GGGUGGGCGGGGCCCCAUUUGGCGGCGGUGGCGCUGGAUUAACAGCCACUGAGAGAGCCACA-ACAACAA-AGGCAGCCCACCGACGUGUAUGAAGCG
.(((((((...(((...((((...(..(((((((((......))))...(....).))))).-.)..)))-)))).)))))))..(((.......))) ( -38.70)
>DroYak_CAF1 10443 97 - 1
GGGUGGGUGGGGCCUCAUUUGGCGACGUUGGCGCUGGAUUAACAGCCACUGAGAGCGUCACA-ACAACAAAAGGCAACCCACCGACGUGUAUGGAGCG
..((.(((((((((......)))((((((..(((((......))))....)..))))))...-..............)))))).))............ ( -34.30)
>consensus
GGGUGGGUGGGGCCUCAUUUGGCGUCGGUGGCGCUGGAUUAACAGCCACUGAGAGAGCCACA_ACAACAA_AGGCAACCCACCGACGUGUAUGGAACG
.(((((((...(((....(((......(((((((((......))))...(....).)))))......)))..))).)))))))............... (-33.01 = -32.95 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:45 2006