Locus 3910

Sequence ID 3L_DroMel_CAF1
Location 11,325,541 – 11,325,719
Length 178
Max. P 0.938416
window6088 window6089

overview

Window 8

Location 11,325,541 – 11,325,644
Length 103
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 94.74
Mean single sequence MFE -19.06
Consensus MFE -16.76
Energy contribution -17.44
Covariance contribution 0.68
Combinations/Pair 1.07
Mean z-score -1.59
Structure conservation index 0.88
SVM decision value 1.27
SVM RNA-class probability 0.938416
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11325541 103 - 23771897
CAUUUCCGAAAUUGUUUACUUAUUUUUGAAUGCCCCUCGGCCAAGGAAUUUGUUUGCUGUCGAUAACCUACGACGCGAUAUGUAAACACAUUCAAUAA--AUAUU
.......(((..(((((((...((((((...(((....)))))))))......((((.((((........))))))))...)))))))..))).....--..... ( -20.70)
>DroSec_CAF1 46236 101 - 1
CAUUUCAGAAAUUGUUUACUUAUUUUUAAAUGCCCCUCGGCCAAAGAAUUUGUUUGCUGUCGAUAACCUACGA--CGAUAUGUAAACACAUUCAAUAA--AUAUU
............((((((.............(((....)))....((((.((((((((((((...........--))))).))))))).))))..)))--))).. ( -18.50)
>DroSim_CAF1 53339 103 - 1
CAUUUCAGAAAUUGUUUACUUAUUUUUAAAUGCCCCUCUGCCAAAGAAUUUGUUUGCUGUCGAUAACCUACGG--UGAUAUGUAAACACAUUCAAUAAAAAUAUU
....................((((((((...((......))....((((.(((((((((((....(((...))--))))).))))))).))))..)))))))).. ( -16.20)
>DroEre_CAF1 50297 101 - 1
CAUUUCAGAAAUUGUUUACUUAUUUUUGAAUGCCCCUCGGCCAAAGAAUUUGUUUGCUGUCGAUAACCUACGA--CGAUAUGUACACACAUUCAACAA--AUAUU
...(((((((((.........))))))))).(((....)))....((((.(((.((((((((...........--))))).))).))).)))).....--..... ( -18.40)
>DroYak_CAF1 38472 101 - 1
CAUUUCAGGAAUUGUUUACUUAUUUUUGAAUGCCCCUCGGCCAAAGAAUUUGUUUGCUGUCGAUAACCUACGA--CGAUAUGUAAACACAUUCAAUAA--AUAUU
...(((((((((.........))))))))).(((....)))....((((.((((((((((((...........--))))).))))))).)))).....--..... ( -21.50)
>consensus
CAUUUCAGAAAUUGUUUACUUAUUUUUGAAUGCCCCUCGGCCAAAGAAUUUGUUUGCUGUCGAUAACCUACGA__CGAUAUGUAAACACAUUCAAUAA__AUAUU
...(((((((((.........))))))))).(((....)))....((((.((((((((((((.............))))).))))))).))))............ (-16.76 = -17.44 +   0.68)

alignment

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secondary structure

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dotplot

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Window 9

Location 11,325,607 – 11,325,719
Length 112
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 92.13
Mean single sequence MFE -22.04
Consensus MFE -18.24
Energy contribution -18.60
Covariance contribution 0.36
Combinations/Pair 1.15
Mean z-score -1.41
Structure conservation index 0.83
SVM decision value 0.29
SVM RNA-class probability 0.669527
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11325607 112 - 23771897
GAGACUUUCUUAAUGUCUCUUUGUGGGCCU---UCUCGGUCCAUUCCAACACCUACGCUUUUGUGACACAUAAAUAUACAUUUCCGAAAUUGUUUACUUAUUUUUGAAUGCCCCU
(((((.........)))))...(((((((.---....)))))))...........(((....))).............((((..(((((.((......)).)))))))))..... ( -19.20)
>DroSec_CAF1 46300 113 - 1
GAGACUUUCUUAAUGUCUCUUUGUGGGCCUG--UUUCGGAACAUUUCAACACCCACGCUUUUGUGACACAUAAAUAUACAUUUCAGAAAUUGUUUACUUAUUUUUAAAUGCCCCU
(((((.........)))))...(((((..((--((..(((....))))))))))))...((((((...))))))....(((((.((((((.........)))))))))))..... ( -18.10)
>DroSim_CAF1 53405 113 - 1
GAGACUUUCUUAAUGUCUCUUUGUGGGCCUG--UUUCGGAACACUUCAACACCCACGCUUUUGUGACACAUAAAUAUACAUUUCAGAAAUUGUUUACUUAUUUUUAAAUGCCCCU
(((((.........)))))...(((((..((--((..((....))..)))))))))...((((((...))))))....(((((.((((((.........)))))))))))..... ( -18.70)
>DroEre_CAF1 50361 115 - 1
GAGACUUUCUUAAUGUCUCUUUGUGGGCCGCCUGCUCGGCCCAUUUCAACACCUACGCUUUUGUGACACAUAAAUAUACAUUUCAGAAAUUGUUUACUUAUUUUUGAAUGCCCCU
(((((.........)))))...((((((((......))))))))............((.((((((...)))))).......(((((((((.........))))))))).)).... ( -26.90)
>DroYak_CAF1 38536 115 - 1
GAGACUUUCUUAAUGUCUCUUUGUGGGCCGAGCAGGCGGCCCAUUUCAACACCUACGCUUUUGUGACACAUAAAUAUACAUUUCAGGAAUUGUUUACUUAUUUUUGAAUGCCCCU
(((((.........)))))...((((((((......))))))))............((.((((((...)))))).......(((((((((.........))))))))).)).... ( -27.30)
>consensus
GAGACUUUCUUAAUGUCUCUUUGUGGGCCUG__UCUCGGACCAUUUCAACACCUACGCUUUUGUGACACAUAAAUAUACAUUUCAGAAAUUGUUUACUUAUUUUUGAAUGCCCCU
(((((.........)))))...(((((((........)))))))...........(((....))).............(((((.((((((.........)))))))))))..... (-18.24 = -18.60 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:48 2006