Locus 1378

Sequence ID 3L_DroMel_CAF1
Location 4,014,914 – 4,015,017
Length 103
Max. P 0.528284
window2144

overview

Window 4

Location 4,014,914 – 4,015,017
Length 103
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 75.31
Mean single sequence MFE -23.37
Consensus MFE -11.79
Energy contribution -12.27
Covariance contribution 0.47
Combinations/Pair 1.27
Mean z-score -1.68
Structure conservation index 0.50
SVM decision value -0.01
SVM RNA-class probability 0.528284
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4014914 103 + 23771897
AUCCUGUGCCCACAAUAUGUACUUCGUUUGUGUGCAGAUUUAUCAUAGCUUUCAGUGAGUUGAUUGGAUUAA------------ACUAAACUAUAUCA-CUAUGUCUAUGGUUUUU
....(.(((.(((((.(((.....)))))))).))).)...((((((((....(((((...(.((((.....------------.)))).)....)))-))..).))))))).... ( -20.40)
>DroPse_CAF1 4374 102 + 1
CUCCUGUGCCCACAACAUGUACUUUGUGUGUGUGCAGAUAUAUCACAGUUUUCAGUGAGUUUUUGGGAUCAU------------AUUCCCCCACAGUG-UUCUUUUCAUUCAUCU-
...(((..(.((((.((.......)))))).)..))).....((((........))))......((((....------------..))))........-................- ( -20.80)
>DroSec_CAF1 4634 98 + 1
AUCCUGUGCCCACAACAUGUACUUUGCUUGUGUGCAGAUCUAUCACAGCUUUCAGUGAGUUGAUUGGAUUAA------------ACUAAGCUAUAU-----AUAUAUAUGGCAUU-
......(((.(((((((.......)).))))).)))((((((...((((((.....))))))..))))))..------------.....(((((((-----....)))))))...- ( -25.20)
>DroSim_CAF1 5397 102 + 1
AUCAUGUGCCCACAACAUGUACUUUGUUUGUGUGCAGAUCUAUCACAGCUUUCAGUGAGUUGAUUGGAUUAA------------ACUAAGCUAUAUUA-CUAUAUCUAUGGCUUU-
......(((.(((((((.......)).))))).)))((((((...((((((.....))))))..))))))..------------...((((((((...-.......)))))))).- ( -23.90)
>DroYak_CAF1 4647 116 + 1
GUCCUGUGCACACAACAUGUACUUUGUGUGUGUGCAGAUUUAUCACAGCUUUCAGUGAGUUGAUUGAAUUGAAUGAUUGAUUGAAUUAAAUUUUAUUUUGAAUAUCUAUGGUAUAC
...(((..((((((.((.......))))))))..)))...(((((.((..((((((((.((((((.(((..(....)..))).))))))...))))..))))...)).)))))... ( -29.10)
>DroPer_CAF1 4368 102 + 1
CUCCUGUGCCCACAACAUGUACUUUGUGUGUGUGCAGAUAUAUCACAGUUUUCAGUGAGUUUUUGGGAUCAU------------AUUCCCCCACAGUG-UUCUUUUCAUUCAUCU-
...(((..(.((((.((.......)))))).)..))).....((((........))))......((((....------------..))))........-................- ( -20.80)
>consensus
AUCCUGUGCCCACAACAUGUACUUUGUGUGUGUGCAGAUAUAUCACAGCUUUCAGUGAGUUGAUUGGAUUAA____________ACUAAACUAUAUUA_CUAUAUCUAUGGAUUU_
......(((.(((((((.......))).)))).)))((((((...((((((.....))))))..)))))).............................................. (-11.79 = -12.27 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:01 2006