Locus 3284

Sequence ID 3L_DroMel_CAF1
Location 9,636,462 – 9,636,597
Length 135
Max. P 0.983696
window5106 window5107

overview

Window 6

Location 9,636,462 – 9,636,565
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 82.91
Mean single sequence MFE -16.40
Consensus MFE -11.23
Energy contribution -11.10
Covariance contribution -0.13
Combinations/Pair 1.24
Mean z-score -2.78
Structure conservation index 0.68
SVM decision value 1.95
SVM RNA-class probability 0.983696
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9636462 103 + 23771897
CAGUUCGCUGCCAUAAUGGCCAAAGCAAAAUAUUAUAUGCACUUUAUAUAUGUGUAUACAAAAGAAACAACUGGCAGAGGAAAUGAAACAAAAAAAAAAAAAA
((.(((.((((((...((((....)).........(((((((.........))))))).........))..))))))..))).)).................. ( -19.20)
>DroSec_CAF1 32265 94 + 1
CAGUUCGCUGCCAUAAUGGCCAAAGCAAAAUAUUAUAUGUACUAUACA--UAUGUAUACAAAAGAAACAACUGGCAGAGGAAACGAAACACAA-------AAA
...(((.((((((...((((....))...((((.(((((((...))))--)))))))..........))..)))))).(....))))......-------... ( -17.70)
>DroSim_CAF1 34791 94 + 1
CAGUUCGCUGCCAUAAUGGCCAAAGCAAAAUAUUAUAUGUACUAUAUA--UAUGUAUACAAAAGAAACAACUGGCAGAGGAAACGAAACACAA-------AAA
...(((.((((((...((((....)).......((((((((.....))--))))))...........))..)))))).(....))))......-------... ( -16.60)
>DroYak_CAF1 32441 88 + 1
CAGUUCGCUGCCAUAAUGGCCAAACCAAAAUAAUAUAUAUGC---ACA--UAUAUAU---AAAGAAACAACUGGACGAGAAAAUACAAAAAGA-------AAA
(((((..(((((.....)))............((((((((..---..)--)))))))---..))....)))))....................-------... ( -12.10)
>consensus
CAGUUCGCUGCCAUAAUGGCCAAAGCAAAAUAUUAUAUGUACUAUACA__UAUGUAUACAAAAGAAACAACUGGCAGAGGAAACGAAACAAAA_______AAA
...(((.((((((...((((....)).......((((((((.........)))))))).........))..)))))).)))...................... (-11.23 = -11.10 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 9,636,488 – 9,636,597
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 81.50
Mean single sequence MFE -14.78
Consensus MFE -9.76
Energy contribution -9.07
Covariance contribution -0.69
Combinations/Pair 1.26
Mean z-score -1.93
Structure conservation index 0.66
SVM decision value 0.58
SVM RNA-class probability 0.788551
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9636488 109 + 23771897
AAAAUAUUAUAUGCACUUUAUAUAUGUGUAUACAAAAGAAACAACUGGCAGAGGAAAUGAAACAAAAAAAAAAAAAAACGAACUUGGCCUGAACAAAUAGGCUGUCAAC
.........(((((((.........))))))).............((((.(((.............................)))((((((......)))))))))).. ( -15.05)
>DroSec_CAF1 32291 100 + 1
AAAAUAUUAUAUGUACUAUACA--UAUGUAUACAAAAGAAACAACUGGCAGAGGAAACGAAACACAA-------AAAACGAACUUGGCCUGAACAAAUAGGCUGUCAAC
...((((.(((((((...))))--)))))))..............((((...(....).........-------...........((((((......)))))))))).. ( -16.40)
>DroSim_CAF1 34817 100 + 1
AAAAUAUUAUAUGUACUAUAUA--UAUGUAUACAAAAGAAACAACUGGCAGAGGAAACGAAACACAA-------AAAACGAACUUGGCCUGAACAAAUAGGCUGUCAAC
.......((((((((.....))--))))))...............((((...(....).........-------...........((((((......)))))))))).. ( -15.30)
>DroYak_CAF1 32467 92 + 1
AAAAUAAUAUAUAUGC---ACA--UAUAUAU---AAAGAAACAACUGGACGAGAAAAUACAAAAAGA-------AAA--AAGGUUGGCCUGAACAAAUAGGCUGUCAGC
......((((((((..---..)--)))))))---...((..(((((.....................-------...--..)))))(((((......)))))..))... ( -12.37)
>consensus
AAAAUAUUAUAUGUACUAUACA__UAUGUAUACAAAAGAAACAACUGGCAGAGGAAACGAAACAAAA_______AAAACGAACUUGGCCUGAACAAAUAGGCUGUCAAC
.......((((((((.........)))))))).............((((...(....)...........................((((((......)))))))))).. ( -9.76 =  -9.07 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:52 2006