Locus 5098

Sequence ID 2R_DroMel_CAF1
Location 16,588,564 – 16,588,678
Length 114
Max. P 0.598538
window8149 window8150

overview

Window 9

Location 16,588,564 – 16,588,678
Length 114
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 84.75
Mean single sequence MFE -27.58
Consensus MFE -18.27
Energy contribution -23.02
Covariance contribution 4.75
Combinations/Pair 1.04
Mean z-score -1.68
Structure conservation index 0.66
SVM decision value 0.13
SVM RNA-class probability 0.598538
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16588564 114 + 20766785
UC-CCUCAUAUCUGCUGAUAUUUUCCCUGAGCUUUUUUUAUCGCGUUGAAAACGUGAAUUCUCGUUAUUUUUACCACAGAUCAGCGACUUGCGGUGUCAGUGAUCUGUGGUCCCU
..-.((((((((....)))).......)))).........((((((.....))))))...............(((((((((((..(((.......)))..))))))))))).... ( -29.91)
>DroSim_CAF1 10292 110 + 1
UC-CCUCAUAUCAGCUGAUCUUUUCCCUGAGCUU----UAUCGCGCUGAAAACGUGAAUUCUCGUUCAUUUUACCACAGAUCAGCGACUUGCGGUGUCAGUGAUCUGUGGUCCCC
..-.......((((((((((((......)))...----.)))).)))))....((((((....))))))...(((((((((((..(((.......)))..))))))))))).... ( -31.90)
>DroEre_CAF1 10295 104 + 1
UC-CCUGAUAUCUGCUGAUAUUUUCCCUGAGCUU----UAUAGCGUUGAAAACGUGGUUUCGCGUAUUUUUUAC------UCACUGACUUGCGGUGUCAGUGAUCUGUGGUCACC
..-...((((((....))))))..(((.(((((.----...)))((.(((.(((((....))))).)))...))------((((((((.......)))))))))).).))..... ( -24.50)
>DroYak_CAF1 10605 105 + 1
UCCCCUGAUAUCUGCUGAUAUUUUCCCUGAGCUU----UAUCUCGUUGAAAACGUGGAUUAGCGUUAUUUUUAC------UCACUGACUUGCAGUGUCAGUGAUCUGUGGUCUCC
......((((((....))))))..(((.(((((.----.(((((((.....))).)))).)))...........------((((((((.......)))))))))).).))..... ( -24.00)
>consensus
UC_CCUCAUAUCUGCUGAUAUUUUCCCUGAGCUU____UAUCGCGUUGAAAACGUGAAUUCGCGUUAUUUUUAC______UCACCGACUUGCGGUGUCAGUGAUCUGUGGUCCCC
.......(((((....)))))...................((((((.....))))))...............((((((((((((((((.......)))))))))))))))).... (-18.27 = -23.02 +   4.75)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 16,588,564 – 16,588,678
Length 114
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 84.75
Mean single sequence MFE -26.69
Consensus MFE -18.99
Energy contribution -22.43
Covariance contribution 3.44
Combinations/Pair 1.11
Mean z-score -1.55
Structure conservation index 0.71
SVM decision value 0.11
SVM RNA-class probability 0.588406
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16588564 114 - 20766785
AGGGACCACAGAUCACUGACACCGCAAGUCGCUGAUCUGUGGUAAAAAUAACGAGAAUUCACGUUUUCAACGCGAUAAAAAAAGCUCAGGGAAAAUAUCAGCAGAUAUGAGG-GA
.((((((((((((((.((((.......)))).))))))))))).........((((((....))))))................))).......(((((....)))))....-.. ( -30.10)
>DroSim_CAF1 10292 110 - 1
GGGGACCACAGAUCACUGACACCGCAAGUCGCUGAUCUGUGGUAAAAUGAACGAGAAUUCACGUUUUCAGCGCGAUA----AAGCUCAGGGAAAAGAUCAGCUGAUAUGAGG-GA
....(((((((((((.((((.......)))).))))))))))).....(((((.(....).)))))(((((((....----..)).....((.....)).))))).......-.. ( -33.30)
>DroEre_CAF1 10295 104 - 1
GGUGACCACAGAUCACUGACACCGCAAGUCAGUGA------GUAAAAAAUACGCGAAACCACGUUUUCAACGCUAUA----AAGCUCAGGGAAAAUAUCAGCAGAUAUCAGG-GA
.(((........((((((((.......))))))))------..........)))....((...(((((...(((...----.)))....)))))(((((....)))))..))-.. ( -20.97)
>DroYak_CAF1 10605 105 - 1
GGAGACCACAGAUCACUGACACUGCAAGUCAGUGA------GUAAAAAUAACGCUAAUCCACGUUUUCAACGAGAUA----AAGCUCAGGGAAAAUAUCAGCAGAUAUCAGGGGA
.....((.....((((((((.......))))))))------...........(((.((....((((((...(((...----...)))...)))))))).)))........))... ( -22.40)
>consensus
GGGGACCACAGAUCACUGACACCGCAAGUCACUGA______GUAAAAAUAACGAGAAUCCACGUUUUCAACGCGAUA____AAGCUCAGGGAAAAUAUCAGCAGAUAUCAGG_GA
.(((((((((((((((((((.......))))))))))))))))..................(((.....)))............))).......(((((....)))))....... (-18.99 = -22.43 +   3.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:27 2006