Locus 5579

Sequence ID 3R_DroMel_CAF1
Location 14,746,997 – 14,747,132
Length 135
Max. P 0.689790
window9091 window9092

overview

Window 1

Location 14,746,997 – 14,747,106
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.00
Mean single sequence MFE -21.50
Consensus MFE -18.06
Energy contribution -18.40
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.84
SVM decision value 0.21
SVM RNA-class probability 0.635226
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14746997 109 - 27905053
---CAA-----AGCAACAGUAAUGAGAGAGUGCUGGGUACACAGGCAACACACACACA---AAACACAGUACUCACCAUCAAUGAACACCGGAACGUCUAUCUCUUCAACUGUGGCAGUA
---...-----.((.(((((...(((((((((((((.....).(....).........---.....)))))))).((.............))........))))....))))).)).... ( -25.82)
>DroVir_CAF1 664 110 - 1
---CUU-----UCGAACAGUAAUGAGAGAGUGCUGGGUACAAGUU--ACGCACACAUUAACACACACAGUACUCACCAUCAAUGAACACCGGAACAUCUAUCUCUUCAACUGUAGCAGUA
---...-----....(((((...((((((((((((.((....(((--(.........))))..)).)))))))).((.............))........))))....)))))....... ( -21.52)
>DroGri_CAF1 6892 110 - 1
UGAUUU-----UCGAACAGUAAUGAGAGAGUGCUG-GUACAAAUU--ACACACACACAA--AAACACAGUACUCACCAUCAAUGAACACCGGAACAUCAAUCUCUUCAACUGUAGCAGUA
......-----....(((((...((((((((((((-((.......--............--..)).)))))))).((.............))........))))....)))))....... ( -20.12)
>DroWil_CAF1 7025 106 - 1
---CGA---ACUCGAACAGUAAUGAGAGAGUGCUG-GUACAUAUG----ACACACACA---AAACACAGUACUCACCAUCAAUGAACACCGGAACAUCUAUCUCUUCAACUGUAGCAGUA
---...---((((..(((((...((((((((((((-.......((----.....))..---.....)))))))).((.............))........))))....))))).).))). ( -21.46)
>DroMoj_CAF1 7437 103 - 1
---AUU-----UCGAACAGUAACGAGAGAGUGCUG-GUACAAAUU--ACACACAC------AAACACAGUACUCACCAUCUAUGAACACCGGUACGUCUAUCUCUUCAACUGUAGCAGUA
---...-----....(((((...((((((((((((-((.......--........------..)).))))))))(((.............))).......))))....)))))....... ( -20.75)
>DroPer_CAF1 6054 112 - 1
---CAACGUAUCGCAACAGUAAUGAGAGAGUUCUUGGUACAUAUUUAACAC--ACACA---AAACACAGUACUCACCAUCAAUGAACACCGGAACAUCUAUCUCUUCAACUGUAGCAGUA
---.........((.(((((...(((((((((((.(((.............--..((.---.......))..(((.......)))..)))))))).....))))))..))))).)).... ( -19.30)
>consensus
___CUA_____UCGAACAGUAAUGAGAGAGUGCUG_GUACAAAUU__ACACACACACA___AAACACAGUACUCACCAUCAAUGAACACCGGAACAUCUAUCUCUUCAACUGUAGCAGUA
...............(((((...((((((((((((.((.........................)).)))))))).((.............))........))))....)))))....... (-18.06 = -18.40 +   0.33)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,747,037 – 14,747,132
Length 95
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 76.81
Mean single sequence MFE -16.28
Consensus MFE -11.02
Energy contribution -11.02
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.23
Structure conservation index 0.68
SVM decision value 0.33
SVM RNA-class probability 0.689790
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14747037 95 - 27905053
UUUUUCGUAUUUAACUUUUUUUUUUGCAA--AGCAACAGUAAUGAGAGAGUGCUGGGUACACAGGCAACACACACACAAAACACAGUACUCACCAUC
..............(((...((.((((..--.)))).))....))).(((((((((.....).(....)..............))))))))...... ( -15.10)
>DroEre_CAF1 5584 84 - 1
UU-UUCGUAUUU----------UUUACAA--AGCAACAGUAAUGAGAGAGUGCUGGGUACACAGGCAACACACACACAAAACACAGUACUCACCAUC
..-.(((((...----------..)))..--.....((....)).))(((((((((.....).(....)..............))))))))...... ( -15.10)
>DroWil_CAF1 7065 83 - 1
UAUUACGAACUC--------G-CUUACGAACUCGAACAGUAAUGAGAGAGUGCUG-GUACAUAUG----ACACACACAAAACACAGUACUCACCAUC
.........(((--------(-.((((...........)))))))).((((((((-.......((----.....)).......))))))))...... ( -16.54)
>DroYak_CAF1 5525 87 - 1
UU-UUAGUAUUU-------UGUUUUGCAA--AGCAACAGUAAUGAGAGAGUGCUGGGUACACAGGCAACACACACACAAAACACAGUACUCACCAUC
((-(((.(((((-------(((((....)--))))).)))).)))))(((((((((.....).(....)..............))))))))...... ( -18.10)
>DroMoj_CAF1 7477 81 - 1
UGUUGGCUACUU--------GUUUUGAUU--UCGAACAGUAACGAGAGAGUGCUG-GUACAAAUU--ACACACAC---AAACACAGUACUCACCAUC
...(((...(((--------((((((...--.....))).)))))).((((((((-((.......--........---..)).)))))))).))).. ( -18.63)
>DroAna_CAF1 7354 81 - 1
UUCAUC--------------UUCUCGCCU--UCGAACAGUAAUGAGAGAGUGCUGGGUACAUAGGCAACACACACACAAAACACAGUACUCACCAUC
......--------------.(((((...--.(.....)...)))))((((((((.((.....(....)......))......))))))))...... ( -14.20)
>consensus
UUUUUCGUAUUU________GUUUUGCAA__ACCAACAGUAAUGAGAGAGUGCUGGGUACACAGGCAACACACACACAAAACACAGUACUCACCAUC
...............................................((((((((.((......................)).))))))))...... (-11.02 = -11.02 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:32 2006