Locus 5836

Sequence ID 3L_DroMel_CAF1
Location 15,758,003 – 15,758,110
Length 107
Max. P 0.962408
window9298 window9299

overview

Window 8

Location 15,758,003 – 15,758,110
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.30
Mean single sequence MFE -25.57
Consensus MFE -16.20
Energy contribution -16.38
Covariance contribution 0.18
Combinations/Pair 1.09
Mean z-score -2.01
Structure conservation index 0.63
SVM decision value 0.09
SVM RNA-class probability 0.578250
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15758003 107 + 23771897
GUCAAGCAAGUGAAUCCUUACAGCCAAACGACGAGGAGCAUUCCAUAUUUUUUGUUCACUGUUUUUUUCUU-------------UGCUUUAUUUUUUUGGUUUCCUCUUCUUGCUCGACG
(((.((((((.(((.((.((.(((.(((.((((..(((((............)))))..)))).)))....-------------.))).)).......)).))).....)))))).))). ( -20.00)
>DroSec_CAF1 9674 106 + 1
GUCAAGCAAGUGAAUCCUUACAGCCAAACGACGAGGAGCAUUCCAUAUUU-UUGUUCACUGCUUUUUUCCU-------------UGGUUUAUUUUUUUGGUUUCCUCUUCUUGCUCGACG
(((.((((((.(((.((....((((((..((.((((((((....(((...-.)))....)))))))))).)-------------))))).........)).))).....)))))).))). ( -23.92)
>DroSim_CAF1 9919 106 + 1
GUCAAGCAAGUGAAUCCUUACAGCCAAACGACGAGGAGCAUUCCAUAUUU-UUGUUCACUGCUUUUUUCCU-------------UGCUUUAUUUUUUUGGUUUCCUCUUCUUGCUCGACG
(((.(((((((((....))))(((((((.(((((((((((....(((...-.)))....))).....))))-------------))......)).)))))))........))))).))). ( -21.40)
>DroEre_CAF1 9803 106 + 1
GUCAAGCAAGUGAAUCCUUACAGCCGAGCGACGAGGAGCAUUCCAUAUUU-UUGUUGCCUGCCUUUUUGCU-------------UGCUUUAUUUUUUUGGUUUCCUCUUCUUGGCUGACG
(((......((((....))))(((((((.((.((((((....(((.....-.((..((..((......)).-------------.))..))......))).)))))))))))))))))). ( -28.90)
>DroAna_CAF1 4407 111 + 1
GUCAAGCAAGUGAAUCCUUAUAACCAAAC---GAGGAGAAUUUCAUAUUU-UUGU--GUUGCUUUUUUCUUGGGGGUGGUCGCAUGGUUUAUUUUUUUGGUUUCCUC---UUGCUUGACG
((((((((((.(((.((....(((((..(---((((((((...((((...-.)))--).....)))))))))...((....)).))))).........)).)))..)---))))))))). ( -33.62)
>consensus
GUCAAGCAAGUGAAUCCUUACAGCCAAACGACGAGGAGCAUUCCAUAUUU_UUGUUCACUGCUUUUUUCCU_____________UGCUUUAUUUUUUUGGUUUCCUCUUCUUGCUCGACG
(((.(((((((((....))))........((.((((((....(((....................................................))).)))))).))))))).))). (-16.20 = -16.38 +   0.18)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,758,003 – 15,758,110
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.30
Mean single sequence MFE -25.33
Consensus MFE -18.18
Energy contribution -18.38
Covariance contribution 0.20
Combinations/Pair 1.22
Mean z-score -2.68
Structure conservation index 0.72
SVM decision value 1.54
SVM RNA-class probability 0.962408
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15758003 107 - 23771897
CGUCGAGCAAGAAGAGGAAACCAAAAAAAUAAAGCA-------------AAGAAAAAAACAGUGAACAAAAAAUAUGGAAUGCUCCUCGUCGUUUGGCUGUAAGGAUUCACUUGCUUGAC
.((((((((((..(.(....))..............-------------..(((....(((((...((((..((..(((....)))..))..))))))))).....))).)))))))))) ( -26.10)
>DroSec_CAF1 9674 106 - 1
CGUCGAGCAAGAAGAGGAAACCAAAAAAAUAAACCA-------------AGGAAAAAAGCAGUGAACAA-AAAUAUGGAAUGCUCCUCGUCGUUUGGCUGUAAGGAUUCACUUGCUUGAC
.((((((((((..(((((..((..............-------------.))......(((.....((.-.....))...))))))))(((....)))............)))))))))) ( -25.66)
>DroSim_CAF1 9919 106 - 1
CGUCGAGCAAGAAGAGGAAACCAAAAAAAUAAAGCA-------------AGGAAAAAAGCAGUGAACAA-AAAUAUGGAAUGCUCCUCGUCGUUUGGCUGUAAGGAUUCACUUGCUUGAC
.((((((((((..(((((..((..............-------------.))......(((.....((.-.....))...))))))))(((....)))............)))))))))) ( -25.66)
>DroEre_CAF1 9803 106 - 1
CGUCAGCCAAGAAGAGGAAACCAAAAAAAUAAAGCA-------------AGCAAAAAGGCAGGCAACAA-AAAUAUGGAAUGCUCCUCGUCGCUCGGCUGUAAGGAUUCACUUGCUUGAC
.(((((((.((..(((((..(((..........((.-------------.((......))..)).....-.....))).....)))))....)).))))(((((......)))))..))) ( -25.95)
>DroAna_CAF1 4407 111 - 1
CGUCAAGCAA---GAGGAAACCAAAAAAAUAAACCAUGCGACCACCCCCAAGAAAAAAGCAAC--ACAA-AAAUAUGAAAUUCUCCUC---GUUUGGUUAUAAGGAUUCACUUGCUUGAC
.(((((((((---(.(....)............((.((..((((..(...((((.........--....-..........))))....---)..))))..)).)).....)))))))))) ( -23.30)
>consensus
CGUCGAGCAAGAAGAGGAAACCAAAAAAAUAAAGCA_____________AGGAAAAAAGCAGUGAACAA_AAAUAUGGAAUGCUCCUCGUCGUUUGGCUGUAAGGAUUCACUUGCUUGAC
.((((((((((..(.(....))....................................(((((...(((.......(((....))).......)))))))).........)))))))))) (-18.18 = -18.38 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:34 2006