Locus 7588

Sequence ID 3L_DroMel_CAF1
Location 20,389,657 – 20,389,763
Length 106
Max. P 0.564774
window12327 window12328

overview

Window 7

Location 20,389,657 – 20,389,763
Length 106
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 76.62
Mean single sequence MFE -34.08
Consensus MFE -17.10
Energy contribution -16.27
Covariance contribution -0.83
Combinations/Pair 1.46
Mean z-score -1.79
Structure conservation index 0.50
SVM decision value 0.06
SVM RNA-class probability 0.564774
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20389657 106 + 23771897
AAAGACACCCACUGUGGUGGCAGCGCUACCACUCUCAUUACUCAGUGCAUCCUCCAUGGAUGAAGUUGUGGAAUCUGUAUCCACAUAACGAUUCCUGGCUAUGUUU--
..(((((......((((((((...)))))))).........((((..(((((.....)))))....((((((.......)))))).........))))...)))))-- ( -29.00)
>DroPse_CAF1 4806 106 + 1
AAAAACUCCGACUGUUGUGGCCGACCCGCCGCUCUCAUUGCUCAGUGUCUCCUCGGCCGAGUUGGUGGUGGUGUCCACUUCCAUGUAGCGGUUUCUGGCCACAUUC--
...............((((((((....((((((..((..((((.(.(((.....))))))))(((.(((((...))))).))))).))))))...))))))))...-- ( -36.80)
>DroSim_CAF1 8191 106 + 1
AAAGACACCCACUGUGGUGGCGGCACUACCACUCUCAUUACUCAGUGCAUCCUCCAUGGAUGAAGUGGUGGAAUCUGUGUCCACAUAGCGAUUCCUGGCUAUGUUU--
...(((((.....(((((((.....)))))))((.(((((((.....(((((.....))))).)))))))))....))))).(((((((........)))))))..-- ( -37.10)
>DroEre_CAF1 4126 106 + 1
AAAGACACCCACUGUGGUGGCAGCACUCCCACUCUCAUUACUCAGUGCAUCCUCCAUGGACGAAGUGGUGGAAUCUGUGUCCACAUAACGAUUCCUGGCUAUGUUC--
...........((((((.((..(((((................)))))..)).))))))(((.(((.(.((((((((((....))))..))))))).))).)))..-- ( -27.69)
>DroAna_CAF1 3720 108 + 1
GAAUACACCUACUGUGGUGGCUGCUCCACCGCUCUCAUUACUCAGAGCAUCUUCCACUGAGGACGUGGUGGAGUCUGUUUCCAUGUAUCGGUUUGUUGCCACAUUUUU
.((((.((((((.((((..((.(((((((((((((........))))).(((((....)))))...))))))))..))..)))))))..))).))))........... ( -37.10)
>DroPer_CAF1 4614 106 + 1
AAAAACUCCGACUGUUGUGGCCGACCCGCCGCUCUCAUUGCUCAGUGUCUCCUCGGCCGAGUUGGUGGUGGUGUCCACUUCCAUGUAGCGGUUUCUGGCCACAUUC--
...............((((((((....((((((..((..((((.(.(((.....))))))))(((.(((((...))))).))))).))))))...))))))))...-- ( -36.80)
>consensus
AAAGACACCCACUGUGGUGGCAGCACCACCACUCUCAUUACUCAGUGCAUCCUCCACGGAGGAAGUGGUGGAAUCUGUUUCCACAUAGCGAUUCCUGGCCACAUUC__
................(((((....((((((((..((((....))))((((.......)))).))))))))....(((....)))............)))))...... (-17.10 = -16.27 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 8

Location 20,389,657 – 20,389,763
Length 106
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 76.62
Mean single sequence MFE -34.62
Consensus MFE -18.85
Energy contribution -17.05
Covariance contribution -1.80
Combinations/Pair 1.46
Mean z-score -1.58
Structure conservation index 0.54
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20389657 106 - 23771897
--AAACAUAGCCAGGAAUCGUUAUGUGGAUACAGAUUCCACAACUUCAUCCAUGGAGGAUGCACUGAGUAAUGAGAGUGGUAGCGCUGCCACCACAGUGGGUGUCUUU
--..(((((((........)))))))((((((.....((((.(((((((((.....)))))....))))..((.(.((((((....))))))).)))))))))))).. ( -30.70)
>DroPse_CAF1 4806 106 - 1
--GAAUGUGGCCAGAAACCGCUACAUGGAAGUGGACACCACCACCAACUCGGCCGAGGAGACACUGAGCAAUGAGAGCGGCGGGUCGGCCACAACAGUCGGAGUUUUU
--...(((((((.((..((((..(.(((..((((...))))..))).(((.((..((......))..))...))).)..)))).)))))))))............... ( -35.80)
>DroSim_CAF1 8191 106 - 1
--AAACAUAGCCAGGAAUCGCUAUGUGGACACAGAUUCCACCACUUCAUCCAUGGAGGAUGCACUGAGUAAUGAGAGUGGUAGUGCCGCCACCACAGUGGGUGUCUUU
--..(((((((........)))))))((((((.......((((((.(((((.....)))))..((.(....).)))))))).......((((....)))))))))).. ( -34.60)
>DroEre_CAF1 4126 106 - 1
--GAACAUAGCCAGGAAUCGUUAUGUGGACACAGAUUCCACCACUUCGUCCAUGGAGGAUGCACUGAGUAAUGAGAGUGGGAGUGCUGCCACCACAGUGGGUGUCUUU
--..(((((((........)))))))((((((((.((((((.....(((((.....)))))..((.(....).)).))))))...)).((((....)))))))))).. ( -32.20)
>DroAna_CAF1 3720 108 - 1
AAAAAUGUGGCAACAAACCGAUACAUGGAAACAGACUCCACCACGUCCUCAGUGGAAGAUGCUCUGAGUAAUGAGAGCGGUGGAGCAGCCACCACAGUAGGUGUAUUC
......(((((..............((....))(.(((((((...(((.....)))....(((((.(....).))))))))))))).)))))(((.....)))..... ( -38.60)
>DroPer_CAF1 4614 106 - 1
--GAAUGUGGCCAGAAACCGCUACAUGGAAGUGGACACCACCACCAACUCGGCCGAGGAGACACUGAGCAAUGAGAGCGGCGGGUCGGCCACAACAGUCGGAGUUUUU
--...(((((((.((..((((..(.(((..((((...))))..))).(((.((..((......))..))...))).)..)))).)))))))))............... ( -35.80)
>consensus
__AAACAUAGCCAGAAACCGCUACAUGGAAACAGACUCCACCACUUCCUCCAUGGAGGAUGCACUGAGUAAUGAGAGCGGUAGGGCGGCCACCACAGUGGGUGUCUUU
....(((((((........)))))))......((((.((....((((.......)))).(((.((.(....).))...(((......)))......))))).)))).. (-18.85 = -17.05 +  -1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:57 2006