Locus 3664

Sequence ID 2L_DroMel_CAF1
Location 10,650,922 – 10,651,020
Length 98
Max. P 0.780508
window5783 window5784

overview

Window 3

Location 10,650,922 – 10,651,020
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.26
Mean single sequence MFE -27.91
Consensus MFE -18.10
Energy contribution -20.14
Covariance contribution 2.04
Combinations/Pair 1.09
Mean z-score -1.67
Structure conservation index 0.65
SVM decision value 0.56
SVM RNA-class probability 0.780508
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10650922 98 + 22407834
--------------------CC--AAAGAGCAUAGUUUUUGGCUAAUUCUAGCCAUUUCCAAUUGGCAACACUGCCUCCCAAACGGUAGGCCCUUCUCGGUGUGGUAUUCCCAACUGUAA
--------------------..--.......((((((..((((((....))))))..........((.(((((((((.((....)).)))).......))))).))......)))))).. ( -23.21)
>DroSec_CAF1 4043 102 + 1
CAAC----------------AC--AAAGAACAUUGUUUUUGGCUUCUUAUAGCCAUUUUCAGUUGGCAGCACUGCCUGCCAAACGGUAGGCCCUUCUCGGUGGGGUAUUCCCAACUGUAA
((((----------------((--((......))))...(((((......)))))......))))(((((((((((((((....))))))).......))))(((....)))..)))).. ( -32.51)
>DroSim_CAF1 4015 102 + 1
CAAC----------------AC--AAAGAACAUUGUUUUUGGCUAUUUAUAGCCAUUUUCAGUUGGCAGCACUGCCUGCCAAACGGUAGGCCCUUCUCGGUGGGGUAUUCCCAACUGUAA
((((----------------((--((......))))...((((((....))))))......))))(((((((((((((((....))))))).......))))(((....)))..)))).. ( -33.11)
>DroEre_CAF1 6399 94 + 1
CAAC-------------------------ACCUCAG-UUUGGCUAUUUCUAGCGAUUUCCAGUUGGCAGCACUACAUCCCACACGGUAGGCCCUUCUCGGUGGGGUUUUCCCAUCUGUAA
...(-------------------------(((..((-...(((.....(((((........))))).....((((..........)))))))...)).))))(((....)))........ ( -20.60)
>DroYak_CAF1 4726 119 + 1
AAAUAGUAUAAAUACCCAUUACAGAAUGAACGUAGU-UUUGGCAAUUUCUAGCGAUUUUCCCUUGCCAGCACUACUUCCCAUACGGUAGGCCCUUCUCGGUGGGGUAUUCCAAACUGUGA
..................((((((...(((.(((((-.(((((((.................))))))).))))))))......((...(((((.......)))))...))...)))))) ( -30.13)
>consensus
CAAC________________AC__AAAGAACAUAGUUUUUGGCUAUUUCUAGCCAUUUUCAGUUGGCAGCACUGCCUCCCAAACGGUAGGCCCUUCUCGGUGGGGUAUUCCCAACUGUAA
.......................................((((((....))))))....(((((((.....(((((........)))))(((((.......)))))....)))))))... (-18.10 = -20.14 +   2.04)

alignment

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secondary structure

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dotplot

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Window 4

Location 10,650,922 – 10,651,020
Length 98
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.26
Mean single sequence MFE -30.02
Consensus MFE -19.36
Energy contribution -21.40
Covariance contribution 2.04
Combinations/Pair 1.08
Mean z-score -1.49
Structure conservation index 0.64
SVM decision value 0.06
SVM RNA-class probability 0.562680
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10650922 98 - 22407834
UUACAGUUGGGAAUACCACACCGAGAAGGGCCUACCGUUUGGGAGGCAGUGUUGCCAAUUGGAAAUGGCUAGAAUUAGCCAAAAACUAUGCUCUUU--GG--------------------
...(((((((.(((((....((.....))((((.((.....)))))).))))).)))))))....((((((....))))))...............--..-------------------- ( -32.20)
>DroSec_CAF1 4043 102 - 1
UUACAGUUGGGAAUACCCCACCGAGAAGGGCCUACCGUUUGGCAGGCAGUGCUGCCAACUGAAAAUGGCUAUAAGAAGCCAAAAACAAUGUUCUUU--GU----------------GUUG
...(((((((.(.(((....((.....))((((.((....)).)))).))).).)))))))....(((((......)))))...((((......))--))----------------.... ( -31.10)
>DroSim_CAF1 4015 102 - 1
UUACAGUUGGGAAUACCCCACCGAGAAGGGCCUACCGUUUGGCAGGCAGUGCUGCCAACUGAAAAUGGCUAUAAAUAGCCAAAAACAAUGUUCUUU--GU----------------GUUG
...(((((((.(.(((....((.....))((((.((....)).)))).))).).)))))))....((((((....))))))...((((......))--))----------------.... ( -32.00)
>DroEre_CAF1 6399 94 - 1
UUACAGAUGGGAAAACCCCACCGAGAAGGGCCUACCGUGUGGGAUGUAGUGCUGCCAACUGGAAAUCGCUAGAAAUAGCCAAA-CUGAGGU-------------------------GUUG
.......((((.....))))((.....))((((.(((..(((.(.(.....)).)))..))).....((((....))))....-...))))-------------------------.... ( -21.90)
>DroYak_CAF1 4726 119 - 1
UCACAGUUUGGAAUACCCCACCGAGAAGGGCCUACCGUAUGGGAAGUAGUGCUGGCAAGGGAAAAUCGCUAGAAAUUGCCAAA-ACUACGUUCAUUCUGUAAUGGGUAUUUAUACUAUUU
....(((...((((((((.....((((((((...((.....))..(((((..((((((.((.......)).....))))))..-))))))))).)))).....))))))))..))).... ( -32.90)
>consensus
UUACAGUUGGGAAUACCCCACCGAGAAGGGCCUACCGUUUGGGAGGCAGUGCUGCCAACUGAAAAUGGCUAGAAAUAGCCAAAAACAAUGUUCUUU__GU________________GUUG
...(((((((.(.(((....((.....))((((.((....)).)))).))).).)))))))....((((((....))))))....................................... (-19.36 = -21.40 +   2.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:10 2006