Locus 6139

Sequence ID X_DroMel_CAF1
Location 15,704,606 – 15,704,702
Length 96
Max. P 0.999986
window9985 window9986

overview

Window 5

Location 15,704,606 – 15,704,702
Length 96
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 72.05
Mean single sequence MFE -22.20
Consensus MFE -13.23
Energy contribution -12.97
Covariance contribution -0.25
Combinations/Pair 1.33
Mean z-score -2.14
Structure conservation index 0.60
SVM decision value 2.09
SVM RNA-class probability 0.987759
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15704606 96 + 22224390
AUGUUUUUCAAUGC-----AAAUUGUACACAUGUAUAGAAAUUUUAAUAGAUGUUCAGUUGCACAUGUGCAACAGUGCGUUUCUCUAUACAUAUGCUCAUC-
.(((........))-----)...((..((.(((((((((.........((((((...((((((....))))))...)))))).))))))))).))..))..- ( -21.50)
>DroSec_CAF1 15797 96 + 1
AUGUUUUUUAAUGC-----GAAAUGUACACAUGUAUAGAAAUAUUAAUAGAUGUUCAGUUGCACAUGUGCAACAGUGCGUUUCUCUAUACAUAUGCUCAUC-
..............-----(((((((((((((.(((.((....)).))).))))...((((((....)))))).)))))))))..................- ( -22.40)
>DroEre_CAF1 15598 96 + 1
AUGGAUUUUAAUAC-----GACAUGUACGCAUGUAUAGAAAUUUUAAUAGAUAUUCAGUUGCACAUGUGCAACAGUGCGAUUCUCUAUACAUAUGCCCAUC-
((((.......(((-----.....))).(((((((((((.((((....))))....((((((((.((.....)))))))))).))))))))..))))))).- ( -21.00)
>DroPer_CAF1 20572 93 + 1
GUUU-CUUUAAACCAGAAGAAAU--UGCAUAUUUGUAGUCCUCGUAAUUGAGGCUCACUUGUUCGUGCGAAAGAAAG---UUCUC---AAAUAUGCUCAAGU
((((-((((......))))))))--.(((((((((.((.(((((....))))))).((((.(((....)))...)))---)...)---))))))))...... ( -23.90)
>consensus
AUGUUUUUUAAUGC_____AAAAUGUACACAUGUAUAGAAAUUUUAAUAGAUGUUCAGUUGCACAUGUGCAACAGUGCGUUUCUCUAUACAUAUGCUCAUC_
...........................((.(((((((((.((((....)))).....((((((....))))))..........))))))))).))....... (-13.23 = -12.97 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,704,606 – 15,704,702
Length 96
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 72.05
Mean single sequence MFE -24.65
Consensus MFE -17.12
Energy contribution -18.50
Covariance contribution 1.38
Combinations/Pair 1.18
Mean z-score -3.31
Structure conservation index 0.69
SVM decision value 5.40
SVM RNA-class probability 0.999986
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15704606 96 - 22224390
-GAUGAGCAUAUGUAUAGAGAAACGCACUGUUGCACAUGUGCAACUGAACAUCUAUUAAAAUUUCUAUACAUGUGUACAAUUU-----GCAUUGAAAAACAU
-..((.(((((((((((((((........((((((....)))))).(.....)........))))))))))))))).))....-----.............. ( -25.60)
>DroSec_CAF1 15797 96 - 1
-GAUGAGCAUAUGUAUAGAGAAACGCACUGUUGCACAUGUGCAACUGAACAUCUAUUAAUAUUUCUAUACAUGUGUACAUUUC-----GCAUUAAAAAACAU
-((((.(((((((((((((((........((((((....)))))).(.....)........))))))))))))))).))))..-----.............. ( -27.00)
>DroEre_CAF1 15598 96 - 1
-GAUGGGCAUAUGUAUAGAGAAUCGCACUGUUGCACAUGUGCAACUGAAUAUCUAUUAAAAUUUCUAUACAUGCGUACAUGUC-----GUAUUAAAAUCCAU
-.(((((((..((((((((((........((((((....)))))).(.....)........)))))))))))))((((.....-----))))......)))) ( -23.20)
>DroPer_CAF1 20572 93 - 1
ACUUGAGCAUAUUU---GAGAA---CUUUCUUUCGCACGAACAAGUGAGCCUCAAUUACGAGGACUACAAAUAUGCA--AUUUCUUCUGGUUUAAAG-AAAC
......((((((((---(((..---......(((((........)))))((((......)))).)).))))))))).--.((((((........)))-))). ( -22.80)
>consensus
_GAUGAGCAUAUGUAUAGAGAAACGCACUGUUGCACAUGUGCAACUGAACAUCUAUUAAAAUUUCUAUACAUGUGUACAAUUC_____GCAUUAAAAAACAU
......(((((((((((((((........((((((....)))))).(.....)........))))))))))))))).......................... (-17.12 = -18.50 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:18 2006