Locus 8498

Sequence ID 3L_DroMel_CAF1
Location 22,290,733 – 22,290,850
Length 117
Max. P 0.950506
window13909 window13910

overview

Window 9

Location 22,290,733 – 22,290,850
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.97
Mean single sequence MFE -29.05
Consensus MFE -23.96
Energy contribution -24.27
Covariance contribution 0.31
Combinations/Pair 1.00
Mean z-score -2.55
Structure conservation index 0.82
SVM decision value 1.40
SVM RNA-class probability 0.950506
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22290733 117 + 23771897
GCUUACAGAACUCCAUAUUGUGUGCAGGGCACAAAGGCAAAGUCGAUUUAGUUGGCCAAAUAAGCAAAAGCAGAAAGAAAAUUGAAGGCCAAAGGGAGAAUCGGGAGUGGG---AAAAGG
.(((.....(((((...((((((.....)))))).........((((((..((((((......((....))...((.....))...)))))).....)))))))))))...---..))). ( -27.80)
>DroSec_CAF1 49137 120 + 1
GCUUACAGAACUCCAUAUUGUGUGCAGGGCACAAAGGCAAAGUCGAUUUAGUUGGCCAAAUAAGCAAAGGCAGAAAGAAAAUUGAAGGCCAAAGGGAGAAUCGGGAGUGGGGGGUAAAGG
(((..(...(((((...((((((.....)))))).(((....(((((((..((.(((...........)))...))..)))))))..))).............))))).)..)))..... ( -31.00)
>DroEre_CAF1 47545 108 + 1
GCUUACAGAACUCCAUAUUGUG-------CACAAA-GCAAAGUCGAUUUAGUUGGCCAAAUAAGCAAAGGCAGAAAGAAAAUUGAAGGCCAAAG-GAGAAUCGGGAGUGGG---GAGAGG
.(((.(...(((((......((-------(.....-)))....((((((..((((((......((....))...((.....))...))))))..-..)))))))))))...---).))). ( -26.80)
>DroYak_CAF1 13568 116 + 1
GCUUACAAAACUCCAUAUUGUGUGCAGGGCACAAA-GCAAAGUCGAUUUAGUUGGCCAAAUAAGCAAAGGCCGAAAGAAAAUUGAAGGCCAAAGGGAGAAUCGGAAGUGGG---GAAAGG
..........((((((.((((((.....)))))).-......(((((((..((((((......((....))(....).........)))))).....)))))))..)))))---)..... ( -30.60)
>consensus
GCUUACAGAACUCCAUAUUGUGUGCAGGGCACAAA_GCAAAGUCGAUUUAGUUGGCCAAAUAAGCAAAGGCAGAAAGAAAAUUGAAGGCCAAAGGGAGAAUCGGGAGUGGG___GAAAGG
.....(...(((((...((((((.....)))))).........((((((..((((((......((....))...((.....))...)))))).....))))))))))).).......... (-23.96 = -24.27 +   0.31)

alignment

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secondary structure

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dotplot

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Window 0

Location 22,290,733 – 22,290,850
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.97
Mean single sequence MFE -21.40
Consensus MFE -18.34
Energy contribution -18.15
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -2.06
Structure conservation index 0.86
SVM decision value 1.13
SVM RNA-class probability 0.920270
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22290733 117 - 23771897
CCUUUU---CCCACUCCCGAUUCUCCCUUUGGCCUUCAAUUUUCUUUCUGCUUUUGCUUAUUUGGCCAACUAAAUCGACUUUGCCUUUGUGCCCUGCACACAAUAUGGAGUUCUGUAAGC
.(((..---...((((((((((......((((((...............((....))......))))))...)))))..........(((((...)))))......))))).....))). ( -21.80)
>DroSec_CAF1 49137 120 - 1
CCUUUACCCCCCACUCCCGAUUCUCCCUUUGGCCUUCAAUUUUCUUUCUGCCUUUGCUUAUUUGGCCAACUAAAUCGACUUUGCCUUUGUGCCCUGCACACAAUAUGGAGUUCUGUAAGC
..(((((.....((((((((((......((((((.............................))))))...)))))..........(((((...)))))......)))))...))))). ( -21.85)
>DroEre_CAF1 47545 108 - 1
CCUCUC---CCCACUCCCGAUUCUC-CUUUGGCCUUCAAUUUUCUUUCUGCCUUUGCUUAUUUGGCCAACUAAAUCGACUUUGC-UUUGUG-------CACAAUAUGGAGUUCUGUAAGC
......---...((((((((((...-..((((((.............................))))))...)))))....(((-.....)-------))......)))))......... ( -19.05)
>DroYak_CAF1 13568 116 - 1
CCUUUC---CCCACUUCCGAUUCUCCCUUUGGCCUUCAAUUUUCUUUCGGCCUUUGCUUAUUUGGCCAACUAAAUCGACUUUGC-UUUGUGCCCUGCACACAAUAUGGAGUUUUGUAAGC
......---....(((.(((..((((..(((.................((((...........)))).................-..(((((...))))))))...))))..))).))). ( -22.90)
>consensus
CCUUUC___CCCACUCCCGAUUCUCCCUUUGGCCUUCAAUUUUCUUUCUGCCUUUGCUUAUUUGGCCAACUAAAUCGACUUUGC_UUUGUGCCCUGCACACAAUAUGGAGUUCUGUAAGC
............((((((((((......((((((.............................))))))...))))).........(((((.......)))))...)))))......... (-18.34 = -18.15 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:09 2006