Locus 4501

Sequence ID 3R_DroMel_CAF1
Location 11,929,829 – 11,929,924
Length 95
Max. P 0.791186
window7357 window7358

overview

Window 7

Location 11,929,829 – 11,929,924
Length 95
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 85.57
Mean single sequence MFE -23.05
Consensus MFE -17.61
Energy contribution -18.92
Covariance contribution 1.31
Combinations/Pair 1.05
Mean z-score -2.11
Structure conservation index 0.76
SVM decision value 0.10
SVM RNA-class probability 0.585856
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11929829 95 + 27905053
UGUGUCGUGUGGAAAAUGGAAGUCACCAUUUGAGGCCACAGAAAAGGUUUAACCUUUGACACAAUAAAAAA--UGUAUCUUUGUCAUUUCAUUUUUG
((((((.(((((.((((((......))))))....)))))..(((((.....)))))))))))...(((((--((..............))))))). ( -26.74)
>DroSec_CAF1 34580 95 + 1
UGUGUCGGGUGGAAAAUGGAAGUCACCAUUUGAGGCCACAGAAAAGGUUUAACCUUUGACACAAUAAAAAA--UGUAUCUUUGUCAUUUAAUUUUUG
((((((..((((.((((((......))))))....))))...(((((.....))))))))))).....(((--((((....)).)))))........ ( -24.60)
>DroSim_CAF1 34481 95 + 1
UGUGUCGGGUGGAAAAUGGAAGUCACCAUUUGAGGCCACAGAAAAGGUUUAACCUUUGACACAAUAAAAAA--UUUAUCUUUGUCAUUUAAUUUUUG
((((((..((((.((((((......))))))....))))...(((((.....)))))))))))...(((((--((..............))))))). ( -23.94)
>DroEre_CAF1 34424 93 + 1
UGUGUCGGGUGGAAAAUGGAAGUCACCAUUUGAGGCCACA--AAAGGUUUAACCUUUGACACAAGAGAAAA--CGUAUCUUUGUCAUUUCAUUUUUG
((((((..((((.((((((......))))))....)))).--(((((.....))))))))))).((((..(--((......)))..))))....... ( -27.10)
>DroYak_CAF1 34883 92 + 1
---GUCGGGUGGAAAAUGGAAGUCACCAUUUGAGGCCACAGAAAAGGUUUAACCUUUGAUACAAGAAAAAA--UGUAUCUUUGUCAUUUCAUUUUUG
---.((..((((.((((((......))))))....)))).))(((((.....)))))((((((........--)))))).................. ( -21.30)
>DroAna_CAF1 52325 82 + 1
AGCGUCAGGUGGUGGAU---------------AGGCCACGAAAAAGGUGUAACCUUUGAGACAAGAAAAAAAUUUUAACUUUGUCAUUUAAUUUUUG
...(((..(((((....---------------..)))))...(((((.....)))))..)))................................... ( -14.60)
>consensus
UGUGUCGGGUGGAAAAUGGAAGUCACCAUUUGAGGCCACAGAAAAGGUUUAACCUUUGACACAAGAAAAAA__UGUAUCUUUGUCAUUUAAUUUUUG
.(((((..((((.((((((......))))))....))))...(((((.....))))))))))................................... (-17.61 = -18.92 +   1.31)

alignment

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secondary structure

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dotplot

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Window 8

Location 11,929,829 – 11,929,924
Length 95
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 85.57
Mean single sequence MFE -19.06
Consensus MFE -15.16
Energy contribution -16.47
Covariance contribution 1.31
Combinations/Pair 1.05
Mean z-score -2.42
Structure conservation index 0.80
SVM decision value 0.59
SVM RNA-class probability 0.791186
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11929829 95 - 27905053
CAAAAAUGAAAUGACAAAGAUACA--UUUUUUAUUGUGUCAAAGGUUAAACCUUUUCUGUGGCCUCAAAUGGUGACUUCCAUUUUCCACACGACACA
.(((((((..............))--)))))...(((((((((((.....)))))..(((((....((((((......)))))).))))).)))))) ( -22.64)
>DroSec_CAF1 34580 95 - 1
CAAAAAUUAAAUGACAAAGAUACA--UUUUUUAUUGUGUCAAAGGUUAAACCUUUUCUGUGGCCUCAAAUGGUGACUUCCAUUUUCCACCCGACACA
.........(((((.(((......--))).)))))((((((((((.....)))))...((((....((((((......)))))).))))..))))). ( -20.80)
>DroSim_CAF1 34481 95 - 1
CAAAAAUUAAAUGACAAAGAUAAA--UUUUUUAUUGUGUCAAAGGUUAAACCUUUUCUGUGGCCUCAAAUGGUGACUUCCAUUUUCCACCCGACACA
.........(((((.(((......--))).)))))((((((((((.....)))))...((((....((((((......)))))).))))..))))). ( -20.80)
>DroEre_CAF1 34424 93 - 1
CAAAAAUGAAAUGACAAAGAUACG--UUUUCUCUUGUGUCAAAGGUUAAACCUUU--UGUGGCCUCAAAUGGUGACUUCCAUUUUCCACCCGACACA
.......((((((.........))--))))....(((((((((((.....)))))--.((((....((((((......)))))).))))..)))))) ( -20.70)
>DroYak_CAF1 34883 92 - 1
CAAAAAUGAAAUGACAAAGAUACA--UUUUUUCUUGUAUCAAAGGUUAAACCUUUUCUGUGGCCUCAAAUGGUGACUUCCAUUUUCCACCCGAC---
..................((((((--........))))))(((((.....)))))...((((....((((((......)))))).)))).....--- ( -18.70)
>DroAna_CAF1 52325 82 - 1
CAAAAAUUAAAUGACAAAGUUAAAAUUUUUUUCUUGUCUCAAAGGUUACACCUUUUUCGUGGCCU---------------AUCCACCACCUGACGCU
.(((((((...((((...)))).))))))).....(((..(((((.....)))))...((((...---------------.....))))..)))... ( -10.70)
>consensus
CAAAAAUGAAAUGACAAAGAUACA__UUUUUUAUUGUGUCAAAGGUUAAACCUUUUCUGUGGCCUCAAAUGGUGACUUCCAUUUUCCACCCGACACA
...................................((((((((((.....)))))...((((....((((((......)))))).))))..))))). (-15.16 = -16.47 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:56 2006