Locus 4858

Sequence ID 2R_DroMel_CAF1
Location 15,919,848 – 15,919,942
Length 94
Max. P 0.642611
window7800 window7801

overview

Window 0

Location 15,919,848 – 15,919,942
Length 94
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.15
Mean single sequence MFE -34.02
Consensus MFE -19.69
Energy contribution -20.92
Covariance contribution 1.22
Combinations/Pair 1.21
Mean z-score -1.66
Structure conservation index 0.58
SVM decision value 0.23
SVM RNA-class probability 0.642611
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15919848 94 + 20766785
------UG-GGGAUUGGCAUCGGGGAUUGGCUGUCAUGUUUGGUUUAUGCUGACAGUCGAGUGACAUGCACU------------------GCGGUGGCGACUUC-UGAUUGUGUUAUUAG
------.(-(((.(((.(((((.((.((((((((((.((.........))))))))))))((.....)).))------------------.))))).)))))))-............... ( -28.90)
>DroPse_CAF1 49304 114 + 1
------UGCGGCAUUGGCAUUGGGGAUUGGCUGUCGUGUUUGGUUUAUGCUGACAGCCAAGUGACAUUCUCCCCUCUGCCUGCAGGAUACACCGUCCCGCCCACUCGAUUGUGUUAUUAG
------.((((((..((((..((((((((((((((((((.......)))).))))))))).........)))))..))))))).((((.....))))))).(((......)))....... ( -42.10)
>DroEre_CAF1 45735 94 + 1
------UG-GGGAUUGGCAUCGGGGAUUGGCUGUCAUGUUUGGUUUAUGCUGACAGUCGAGUGACGUGCAGU------------------GCGGUGCCGACUUC-UGAUUGUGUUAUGAG
------.(-(((.(((((((((.(..((((((((((.((.........))))))))))))((.....))..)------------------.)))))))))))))-............... ( -30.30)
>DroYak_CAF1 48959 94 + 1
------UG-GGGAUUGGCAUCGGGGAUUGGCUGUCAUGUUUGGUUUAUGCUGACAGCCGAGUGACGUGCAGU------------------GCGGUGUCGACUUC-UGAUUGUGUUAUUAG
------.(-(((.(((((((((.(..((((((((((.((.........))))))))))))((.....))..)------------------.)))))))))))))-............... ( -30.30)
>DroAna_CAF1 40622 100 + 1
GUGGAUUG-GGGAUUGGCAUCGGGGAUUGGCUGUCGUGUUUGGUUUAUGCUGACAGCCAAGUGACAUGCACG------------------GCGAAGGCGACUUC-UGAUUGUGUUAUUAG
...(((..-((..(((.(.(((....(((((((((((((.......)))).)))))))))(((.....))).------------------.))).).)))..))-..))).......... ( -30.40)
>DroPer_CAF1 49454 114 + 1
------UGCGGCAUUGGCAUUGGGGAUUGGCUGUCGUGUUUGGUUUAUGCUGACAGCCAAGUGACAUUCUCCCCUCUGCCUGCAGGAUACGCCGUCCCGCCCACUCGAUUGUGUUAUUAG
------.((((((..((((..((((((((((((((((((.......)))).))))))))).........)))))..))))))).((((.....))))))).(((......)))....... ( -42.10)
>consensus
______UG_GGGAUUGGCAUCGGGGAUUGGCUGUCAUGUUUGGUUUAUGCUGACAGCCAAGUGACAUGCACU__________________GCGGUGCCGACUUC_UGAUUGUGUUAUUAG
.............(((((((((....((((((((((.((.........))))))))))))(((.....)))....................))))))))).................... (-19.69 = -20.92 +   1.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,919,848 – 15,919,942
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.15
Mean single sequence MFE -25.58
Consensus MFE -9.42
Energy contribution -9.76
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.48
Structure conservation index 0.37
SVM decision value 0.12
SVM RNA-class probability 0.594302
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15919848 94 - 20766785
CUAAUAACACAAUCA-GAAGUCGCCACCGC------------------AGUGCAUGUCACUCGACUGUCAGCAUAAACCAAACAUGACAGCCAAUCCCCGAUGCCAAUCCC-CA------
...............-(..((((....((.------------------((((.....)))))).((((((..............))))))........))))..)......-..------ ( -13.14)
>DroPse_CAF1 49304 114 - 1
CUAAUAACACAAUCGAGUGGGCGGGACGGUGUAUCCUGCAGGCAGAGGGGAGAAUGUCACUUGGCUGUCAGCAUAAACCAAACACGACAGCCAAUCCCCAAUGCCAAUGCCGCA------
................((((((((((.......)))))).((((..((((((.....)..(((((((((................))))))))))))))..))))....)))).------ ( -44.29)
>DroEre_CAF1 45735 94 - 1
CUCAUAACACAAUCA-GAAGUCGGCACCGC------------------ACUGCACGUCACUCGACUGUCAGCAUAAACCAAACAUGACAGCCAAUCCCCGAUGCCAAUCCC-CA------
...............-......((((.((.------------------...((..(((....)))(((((..............))))))).......)).))))......-..------ ( -14.14)
>DroYak_CAF1 48959 94 - 1
CUAAUAACACAAUCA-GAAGUCGACACCGC------------------ACUGCACGUCACUCGGCUGUCAGCAUAAACCAAACAUGACAGCCAAUCCCCGAUGCCAAUCCC-CA------
...........(((.-((.((.(((...((------------------...))..)))))))((((((((..............)))))))).......))).........-..------ ( -18.34)
>DroAna_CAF1 40622 100 - 1
CUAAUAACACAAUCA-GAAGUCGCCUUCGC------------------CGUGCAUGUCACUUGGCUGUCAGCAUAAACCAAACACGACAGCCAAUCCCCGAUGCCAAUCCC-CAAUCCAC
...............-((((....))))..------------------.(.((((.....(((((((((................)))))))))......)))))......-........ ( -19.29)
>DroPer_CAF1 49454 114 - 1
CUAAUAACACAAUCGAGUGGGCGGGACGGCGUAUCCUGCAGGCAGAGGGGAGAAUGUCACUUGGCUGUCAGCAUAAACCAAACACGACAGCCAAUCCCCAAUGCCAAUGCCGCA------
................((((((((((.......)))))).((((..((((((.....)..(((((((((................))))))))))))))..))))....)))).------ ( -44.29)
>consensus
CUAAUAACACAAUCA_GAAGUCGGCACCGC__________________AGUGCAUGUCACUCGGCUGUCAGCAUAAACCAAACACGACAGCCAAUCCCCGAUGCCAAUCCC_CA______
..............................................................(((((((................)))))))............................ ( -9.42 =  -9.76 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:56 2006