Locus 4351

Sequence ID 3R_DroMel_CAF1
Location 11,467,225 – 11,467,363
Length 138
Max. P 0.790662
window7116 window7117

overview

Window 6

Location 11,467,225 – 11,467,333
Length 108
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 83.55
Mean single sequence MFE -27.15
Consensus MFE -17.14
Energy contribution -17.10
Covariance contribution -0.04
Combinations/Pair 1.19
Mean z-score -2.21
Structure conservation index 0.63
SVM decision value 0.59
SVM RNA-class probability 0.790662
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11467225 108 + 27905053
AAGCAACAAAAAGGG-AAAAGGUGUUAGAAAUCAAAGAACUUGGCGCCGCCUUAAAGAUGCAACAGCCAACGAGCCAUGGAAGUGGCAUAUGUUGGCCAUA----UACAUAAU
..(((.(....((((-....((((((((............)))))))).))))...).)))....(((((((.(((((....)))))...)))))))....----........ ( -29.70)
>DroSec_CAF1 1415 108 + 1
AAGCAACAAAAUGGG-AAAAGGUGAAAGAAAUCAAAGAACUUGGCGCCGCCUUAAAGAUGCAACAGCCAACGAGCCAUGGAAGUGGCAUGUGUUGGCCAUA----GACAUAAU
..(((.......(((-....((((.(((...........)))..)))).)))......)))....(((((((.(((((....)))))...)))))))....----........ ( -28.62)
>DroSim_CAF1 1615 112 + 1
AAGCAACAAAAUGGG-AAAAGGUGUUAGAAAUCAAAGAACUUGGCGCCGCCUUAAAGAUGCAACAGCCAACGAGCCAUGGAAGUGGCAUGUGUUGGCCAUAUAUAUACAUAAU
..(((.......(((-....((((((((............)))))))).)))......)))....(((((((.(((((....)))))...)))))))................ ( -30.72)
>DroEre_CAF1 3387 108 + 1
AAGCAACAAAGAGGG-AAAAGGUGUUAGAAAUCAAAGAACUUGGCGCCGUCUUAAAGAUGCAACAAGCAACCAGCCAACGGAGUGGCAUGUGUUGGCCACA----UACAUAAU
............(((-(...((((((((............)))))))).)).......(((.....))).)).(((((((.(......).)))))))....----........ ( -22.80)
>DroAna_CAF1 90364 94 + 1
UGGCCAUGAAAAGGGAAAAAGGUGUUAGAAAUCAAAGAACUUGGCGCCGCCUUCAAAAGGAAACC---------------GAGUGGCAUGUGUUGGCCACA----UACAUAAG
((((((..............((((((((............))))))))((((((....(....).---------------))).)))......))))))..----........ ( -23.90)
>consensus
AAGCAACAAAAAGGG_AAAAGGUGUUAGAAAUCAAAGAACUUGGCGCCGCCUUAAAGAUGCAACAGCCAACGAGCCAUGGAAGUGGCAUGUGUUGGCCAUA____UACAUAAU
..(((.(....((((.....((((((((............)))))))).))))...).))).....................(((((........)))))............. (-17.14 = -17.10 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 11,467,264 – 11,467,363
Length 99
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 82.50
Mean single sequence MFE -28.34
Consensus MFE -15.04
Energy contribution -17.44
Covariance contribution 2.40
Combinations/Pair 1.19
Mean z-score -2.36
Structure conservation index 0.53
SVM decision value 0.44
SVM RNA-class probability 0.738124
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11467264 99 - 27905053
UUAAAGCCCAUAAAAGGAGCCUUAAAUAAAAUUAUGUA----UAUGGCCAACAUAUGCCACUUCCAUGGCUCGUUGGCUGUUGCAUCUUUAAGGCGGCGCCAA
.....((((......)..((((((((.......(((((----.(((((((((....((((......))))..)))))))))))))).)))))))))))..... ( -30.90)
>DroSec_CAF1 1454 99 - 1
UUAAAGGCCAUAAAAGGAGCCUUAAAUAAAAUUAUGUC----UAUGGCCAACACAUGCCACUUCCAUGGCUCGUUGGCUGUUGCAUCUUUAAGGCGGCGCCAA
.....((((.........((((((((.......((((.----.(((((((((....((((......))))..))))))))).)))).)))))))).).))).. ( -30.10)
>DroSim_CAF1 1654 103 - 1
UUAAAGGCCAUAAAAGGAGCCUUAAAUAAAAUUAUGUAUAUAUAUGGCCAACACAUGCCACUUCCAUGGCUCGUUGGCUGUUGCAUCUUUAAGGCGGCGCCAA
.....((((.........((((((((.......(((((.....(((((((((....((((......))))..)))))))))))))).)))))))).).))).. ( -28.90)
>DroEre_CAF1 3426 99 - 1
UUAAAGGCCAUAAAGGGAGUCUUCAAUAAAAUUAUGUA----UGUGGCCAACACAUGCCACUCCGUUGGCUGGUUGCUUGUUGCAUCUUUAAGACGGCGCCAA
.....(((....((.(((((.....(((....)))(((----((((.....))))))).))))).)).((((..(((.....)))((.....))))))))).. ( -25.80)
>DroAna_CAF1 90404 84 - 1
UUAAAGGCCAUAAAAGGAGUCUCUACGAGACUUAUGUA----UGUGGCCAACACAUGCCACUC---------------GGUUUCCUUUUGAAGGCGGCGCCAA
......(((.(((((((((((((...)))))....(((----((((.....))))))).....---------------....))))))))..)))........ ( -26.00)
>consensus
UUAAAGGCCAUAAAAGGAGCCUUAAAUAAAAUUAUGUA____UAUGGCCAACACAUGCCACUUCCAUGGCUCGUUGGCUGUUGCAUCUUUAAGGCGGCGCCAA
...............((.((((((((.......(((((.....(..((((((....((((......))))..))))))..)))))).))))))))....)).. (-15.04 = -17.44 +   2.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:03 2006