Locus 4266

Sequence ID 2R_DroMel_CAF1
Location 14,077,462 – 14,077,602
Length 140
Max. P 0.758317
window6845 window6846

overview

Window 5

Location 14,077,462 – 14,077,562
Length 100
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.71
Mean single sequence MFE -28.30
Consensus MFE -22.43
Energy contribution -22.43
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.01
Structure conservation index 0.79
SVM decision value 0.49
SVM RNA-class probability 0.758317
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14077462 100 - 20766785
GACAGUGGGCGUGGCACUACUCAUGCCAACUAAUUGUUGUUCGUGGCU-UGGCAAAAUGUUGCCCA-ACCAGGCAA-AAAAAAACCG---------AAGAAAAGGGG--------AAAAA
((((((.(((((((......))))))).....))))))...(.(((..-.(((((....)))))..-.))).)...-.......((.---------.......))..--------..... ( -24.20)
>DroSim_CAF1 2000 100 - 1
GACAGUGGGCGUGGCACUACUCAUGCCAACUAAUUGUUGUUCGUGGCU-UGGCAAAAUGUUGCCCA-ACCAGGCAACAAAAAAACCG---------AAGAAAAGGGG--------AA-AA
...(((.(((((((......))))))).)))..((((((((..(((..-.(((((....)))))..-.))))))))))).....((.---------.......))..--------..-.. ( -29.10)
>DroYak_CAF1 2255 115 - 1
GACAGUGGGCGUGGCACUACUCAUGCCAACUAAUUGUUGUUCGUGGCUUUGGCAAAAUGUUGCCCAAACCAGGCAA-A----AACCGUAGAAGAAAAAAAAAAGGGGCGACAAAGAAAAA
...(((.(((((((......))))))).)))..(((((((((.(((.((.(((((....))))).)).)))((...-.----..))..................)))))))))....... ( -31.60)
>consensus
GACAGUGGGCGUGGCACUACUCAUGCCAACUAAUUGUUGUUCGUGGCU_UGGCAAAAUGUUGCCCA_ACCAGGCAA_AAAAAAACCG_________AAGAAAAGGGG________AAAAA
((((((.(((((((......))))))).....))))))...(.(((....(((((....)))))....))).)...........((.................))............... (-22.43 = -22.43 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 14,077,485 – 14,077,602
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.64
Mean single sequence MFE -43.63
Consensus MFE -39.40
Energy contribution -39.40
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.90
SVM decision value 0.31
SVM RNA-class probability 0.682032
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14077485 117 - 20766785
GUCAGUCUGCCCGAAAAGACAGGCGGCACAGCGGCGGUCUGACAGUGGGCGUGGCACUACUCAUGCCAACUAAUUGUUGUUCGUGGCU-UGGCAAAAUGUUGCCCA-ACCAGGCAA-AAA
....(((.(((((((.((((..((.((...)).)).))))((((((.(((((((......))))))).....)))))).)))).))).-.)))......(((((..-....)))))-... ( -40.60)
>DroSim_CAF1 2022 118 - 1
GUCAGUCUGCCCGAAAAGACAGGCGGCACAGCGGCGGUCUGACAGUGGGCGUGGCACUACUCAUGCCAACUAAUUGUUGUUCGUGGCU-UGGCAAAAUGUUGCCCA-ACCAGGCAACAAA
(((((.((((((.....)....((......))))))).)))))(((.(((((((......))))))).)))..((((((((..(((..-.(((((....)))))..-.))))))))))). ( -45.20)
>DroYak_CAF1 2293 117 - 1
GUCAGUCUGCCCGAAAAGACUGGCGGCACAGCGGCGGUCUGACAGUGGGCGUGGCACUACUCAUGCCAACUAAUUGUUGUUCGUGGCUUUGGCAAAAUGUUGCCCAAACCAGGCAA-A--
((((((((........))))))))(.((.(((.((((...((((((.(((((((......))))))).....))))))..)))).))).)).)......(((((.......)))))-.-- ( -45.10)
>consensus
GUCAGUCUGCCCGAAAAGACAGGCGGCACAGCGGCGGUCUGACAGUGGGCGUGGCACUACUCAUGCCAACUAAUUGUUGUUCGUGGCU_UGGCAAAAUGUUGCCCA_ACCAGGCAA_AAA
(((.((((........)))).)))(.((.(((.((((...((((((.(((((((......))))))).....))))))..)))).))).)).)......(((((.......))))).... (-39.40 = -39.40 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:40 2006