Locus 3843

Sequence ID 3L_DroMel_CAF1
Location 11,112,691 – 11,112,781
Length 90
Max. P 0.991703
window5985 window5986

overview

Window 5

Location 11,112,691 – 11,112,781
Length 90
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 81.70
Mean single sequence MFE -19.80
Consensus MFE -16.49
Energy contribution -16.55
Covariance contribution 0.06
Combinations/Pair 1.11
Mean z-score -2.54
Structure conservation index 0.83
SVM decision value 2.28
SVM RNA-class probability 0.991703
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11112691 90 + 23771897
UGAUGUCCCAUGGUUUUCCUAGGAUUUCCUUUUUUUUAUAUCUUUUUUUCCGUUUUGUCGGUUUGCCAUGGACAUUAUCGCCCCGAAAAC------
((((((((.(((((......(((....)))...................(((......)))...))))))))))))).............------ ( -20.20)
>DroSec_CAF1 9468 88 + 1
UGAUGUCCCAUGGUUUUACUAGGAUUUCCUUUUUUUUCCAU--UUUUUUCCGCUUUGUUGGUUUGCCAUGGACAUUAUCACCCCGAAAAC------
((((((((.(((((...(((((((............)))..--........((...))))))..))))))))))))).............------ ( -18.40)
>DroSim_CAF1 9195 78 + 1
UGAUGUCCCAUGGUUUUACUAGGAUUUCCUUUUU------------UUUCCGCUUUGUUGGUUUGCCAUGGACAUUAUCACCCCGAAAAC------
((((((((.(((((...(((((((..........------------..))).......))))..))))))))))))).............------ ( -18.81)
>DroEre_CAF1 11708 94 + 1
UGAUGUCCCAUGGUUUUCUUAAGAUUUUCUGUUUUCUUGUU--UUUCUUCCGUUUUGUCGGCUUGCCAGGGACAUUAUCGCCCCGAAAACCGAAAA
(((((((((.((((.....(((((..........)))))..--......(((......)))...)))))))))))))................... ( -21.80)
>consensus
UGAUGUCCCAUGGUUUUACUAGGAUUUCCUUUUUUUU__AU__UUUUUUCCGCUUUGUCGGUUUGCCAUGGACAUUAUCACCCCGAAAAC______
((((((((.(((((......(((....)))...................(((......)))...)))))))))))))................... (-16.49 = -16.55 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 11,112,691 – 11,112,781
Length 90
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 81.70
Mean single sequence MFE -17.32
Consensus MFE -12.64
Energy contribution -12.95
Covariance contribution 0.31
Combinations/Pair 1.07
Mean z-score -1.70
Structure conservation index 0.73
SVM decision value 0.37
SVM RNA-class probability 0.708952
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11112691 90 - 23771897
------GUUUUCGGGGCGAUAAUGUCCAUGGCAAACCGACAAAACGGAAAAAAAGAUAUAAAAAAAAGGAAAUCCUAGGAAAACCAUGGGACAUCA
------.((((((((((......)))).(((....)))......))))))..................((..(((((((....)).)))))..)). ( -17.70)
>DroSec_CAF1 9468 88 - 1
------GUUUUCGGGGUGAUAAUGUCCAUGGCAAACCAACAAAGCGGAAAAAA--AUGGAAAAAAAAGGAAAUCCUAGUAAAACCAUGGGACAUCA
------...............((((((((((....((........))......--...........(((....))).......)))).)))))).. ( -15.30)
>DroSim_CAF1 9195 78 - 1
------GUUUUCGGGGUGAUAAUGUCCAUGGCAAACCAACAAAGCGGAAA------------AAAAAGGAAAUCCUAGUAAAACCAUGGGACAUCA
------...............((((((((((....((........))...------------....(((....))).......)))).)))))).. ( -15.30)
>DroEre_CAF1 11708 94 - 1
UUUUCGGUUUUCGGGGCGAUAAUGUCCCUGGCAAGCCGACAAAACGGAAGAAA--AACAAGAAAACAGAAAAUCUUAAGAAAACCAUGGGACAUCA
(((((.(((((((((((......))))).......(((......)))......--.....)))))).)))))(((((.(.....).)))))..... ( -21.00)
>consensus
______GUUUUCGGGGCGAUAAUGUCCAUGGCAAACCAACAAAACGGAAAAAA__AU__AAAAAAAAGGAAAUCCUAGGAAAACCAUGGGACAUCA
.....................((((((((((....((........))...................(((....))).......)))).)))))).. (-12.64 = -12.95 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:10 2006