Locus 421

Sequence ID X_DroMel_CAF1
Location 1,225,038 – 1,225,140
Length 102
Max. P 0.889220
window647 window648

overview

Window 7

Location 1,225,038 – 1,225,140
Length 102
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 92.45
Mean single sequence MFE -33.76
Consensus MFE -29.93
Energy contribution -29.83
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.91
Structure conservation index 0.89
SVM decision value 0.31
SVM RNA-class probability 0.683635
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1225038 102 + 22224390
GCGUGGUGGCGUUGUGGCUGUUAUGCAAAUCGUGCGACUGGGAAAGCAGUUUACUUUUACUUUUCAAAUCGAUUAUAUGUGCACACAGC------CGCCAUUUCGUGC
(((..(((((.....((((((..((((.......(((...((((((.((.......)).))))))...)))........)))).)))))------))))))..))).. ( -30.56)
>DroSim_CAF1 2118 102 + 1
GCGUGGUGGCGGUUUGGCUGUUAUGCAAAUCGUGCGACUGGGAAAGCAGUUUACUUUUACUUUUCAAAUCGAUUAUAUGUGCACACAGC------CGCCAUUUCGUGC
(((..(((((.....((((((..((((.......(((...((((((.((.......)).))))))...)))........)))).)))))------))))))..))).. ( -30.56)
>DroYak_CAF1 1801 107 + 1
-UGGGGUGGCGUUGUGGCUGUUAUGCAAAUCGUGCGACUGGGAAAGCAGUUUACUUUUACUUUUCAAAUCGAUUAUAUGUGCACACAGUGCACAGCGCCAUUUCGUGC
-.(..((((((((((((((((..((((.......(((...((((((.((.......)).))))))...)))........)))).))))).)))))))))))..).... ( -40.16)
>consensus
GCGUGGUGGCGUUGUGGCUGUUAUGCAAAUCGUGCGACUGGGAAAGCAGUUUACUUUUACUUUUCAAAUCGAUUAUAUGUGCACACAGC______CGCCAUUUCGUGC
(((..((((((.....(((((..((((.......(((...((((((.((.......)).))))))...)))........)))).)))))......))))))..))).. (-29.93 = -29.83 +  -0.11)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 1,225,038 – 1,225,140
Length 102
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 92.45
Mean single sequence MFE -28.53
Consensus MFE -25.63
Energy contribution -25.97
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.31
Structure conservation index 0.90
SVM decision value 0.96
SVM RNA-class probability 0.889220
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1225038 102 - 22224390
GCACGAAAUGGCG------GCUGUGUGCACAUAUAAUCGAUUUGAAAAGUAAAAGUAAACUGCUUUCCCAGUCGCACGAUUUGCAUAACAGCCACAACGCCACCACGC
...((...(((((------((((((((((.((.....(((((.(.((((((.........)))))).).)))))....)).))))).)))))).....))))...)). ( -27.70)
>DroSim_CAF1 2118 102 - 1
GCACGAAAUGGCG------GCUGUGUGCACAUAUAAUCGAUUUGAAAAGUAAAAGUAAACUGCUUUCCCAGUCGCACGAUUUGCAUAACAGCCAAACCGCCACCACGC
...((...(((((------((((((((((.((.....(((((.(.((((((.........)))))).).)))))....)).))))).)))))).....))))...)). ( -27.70)
>DroYak_CAF1 1801 107 - 1
GCACGAAAUGGCGCUGUGCACUGUGUGCACAUAUAAUCGAUUUGAAAAGUAAAAGUAAACUGCUUUCCCAGUCGCACGAUUUGCAUAACAGCCACAACGCCACCCCA-
........(((((.((((..(((((((((.((.....(((((.(.((((((.........)))))).).)))))....)).))))).)))).)))).))))).....- ( -30.20)
>consensus
GCACGAAAUGGCG______GCUGUGUGCACAUAUAAUCGAUUUGAAAAGUAAAAGUAAACUGCUUUCCCAGUCGCACGAUUUGCAUAACAGCCACAACGCCACCACGC
........(((((......((((((((((.((.....(((((.(.((((((.........)))))).).)))))....)).))))).))))).....)))))...... (-25.63 = -25.97 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:11 2006