Locus 1485

Sequence ID X_DroMel_CAF1
Location 4,419,551 – 4,419,671
Length 120
Max. P 0.998088
window2378 window2379

overview

Window 8

Location 4,419,551 – 4,419,671
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.74
Mean single sequence MFE -18.24
Consensus MFE -17.72
Energy contribution -17.72
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.97
SVM decision value 3.00
SVM RNA-class probability 0.998088
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4419551 120 + 22224390
AAGCCUUCAAGCCAGCUCUAUCGUAAAUCAUAAGCGAUAAGAUAACACUCAUAAAAAUAAGUCAAAACCUUCACACGAUCAGAGCGAAAUCAAACAAAGAUAUAGACACAGACACUGGCA
..........((((((((((((((..(((......)))..((......))........................))))).)))))...(((.......)))..............)))). ( -18.80)
>DroSec_CAF1 22106 114 + 1
AAGCCUUCAAGCCAGCUCUAUCGUAAAUCAUAAGCGAUAAGAUAACUCUCAUAAAAAUAAGUCAAAACCUUCACACGAUCAGAGCGAAAUCAAACAAAGAUAUAGA------CACUGGCA
..........((((((((((((((..(((......)))..((......))........................))))).)))))...(((.......))).....------...)))). ( -18.80)
>DroSim_CAF1 23419 114 + 1
AAGCCUUCAAGCCAGCUCUAUCGUAAAUCAUAAGCGAUAAGAUAACACUCAUAAAAAUAAGUCAAAACCUUCACACGAUCAGAGCGAAAUCAAACAAAGAUAUAGA------CACUGGCA
..........((((((((((((((..(((......)))..((......))........................))))).)))))...(((.......))).....------...)))). ( -18.80)
>DroEre_CAF1 23069 114 + 1
AAGCCUUCAAGCCUGCUCUAUCGUAAAUCAUAAGCGAUAAGAUAACACUCAUAAAAAUAAGUCAAAACCGUCACACGAUCAGAGCGAAAUCAAACAAAGAUAUAGA------CACUGGCA
..........((((((((((((((..(((......)))..((......))........................))))).))))))..(((.......))).....------....))). ( -17.40)
>DroYak_CAF1 22753 114 + 1
AAGCCUUCAAGCCUGCUCUAUCGUAAAUCAUAAGCGAUAAGAUAACACUCAUAAAAAUAAGUCAAAACCUUCACACGAUCAGAGCGAAAUCAAACAAAGAUAUAGA------CACUGGCA
..........((((((((((((((..(((......)))..((......))........................))))).))))))..(((.......))).....------....))). ( -17.40)
>consensus
AAGCCUUCAAGCCAGCUCUAUCGUAAAUCAUAAGCGAUAAGAUAACACUCAUAAAAAUAAGUCAAAACCUUCACACGAUCAGAGCGAAAUCAAACAAAGAUAUAGA______CACUGGCA
..........(((.((((((((((..(((......)))..((......))........................))))).)))))...(((.......)))...............))). (-17.72 = -17.72 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,419,551 – 4,419,671
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.74
Mean single sequence MFE -29.08
Consensus MFE -24.50
Energy contribution -24.90
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.12
Structure conservation index 0.84
SVM decision value 1.61
SVM RNA-class probability 0.967220
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4419551 120 - 22224390
UGCCAGUGUCUGUGUCUAUAUCUUUGUUUGAUUUCGCUCUGAUCGUGUGAAGGUUUUGACUUAUUUUUAUGAGUGUUAUCUUAUCGCUUAUGAUUUACGAUAGAGCUGGCUUGAAGGCUU
.((((((.((((((((...(((((..(.(((((.......))))).)..)))))...)))......(((((((((.........)))))))))......))))))))))).......... ( -33.70)
>DroSec_CAF1 22106 114 - 1
UGCCAGUG------UCUAUAUCUUUGUUUGAUUUCGCUCUGAUCGUGUGAAGGUUUUGACUUAUUUUUAUGAGAGUUAUCUUAUCGCUUAUGAUUUACGAUAGAGCUGGCUUGAAGGCUU
.(((((((------((...(((((..(.(((((.......))))).)..)))))...)))((((....((((((....)))))).....))))...........)))))).......... ( -26.20)
>DroSim_CAF1 23419 114 - 1
UGCCAGUG------UCUAUAUCUUUGUUUGAUUUCGCUCUGAUCGUGUGAAGGUUUUGACUUAUUUUUAUGAGUGUUAUCUUAUCGCUUAUGAUUUACGAUAGAGCUGGCUUGAAGGCUU
.(((((((------((...(((((..(.(((((.......))))).)..)))))...)))......(((((((((.........)))))))))...........)))))).......... ( -29.90)
>DroEre_CAF1 23069 114 - 1
UGCCAGUG------UCUAUAUCUUUGUUUGAUUUCGCUCUGAUCGUGUGACGGUUUUGACUUAUUUUUAUGAGUGUUAUCUUAUCGCUUAUGAUUUACGAUAGAGCAGGCUUGAAGGCUU
.(((...(------(((..(((.......)))...((((((.(((((....(((....))).....(((((((((.........)))))))))..))))))))))))))).....))).. ( -27.20)
>DroYak_CAF1 22753 114 - 1
UGCCAGUG------UCUAUAUCUUUGUUUGAUUUCGCUCUGAUCGUGUGAAGGUUUUGACUUAUUUUUAUGAGUGUUAUCUUAUCGCUUAUGAUUUACGAUAGAGCAGGCUUGAAGGCUU
.(((...(------(((..(((.......)))...((((((.(((((...((((....))))....(((((((((.........)))))))))..))))))))))))))).....))).. ( -28.40)
>consensus
UGCCAGUG______UCUAUAUCUUUGUUUGAUUUCGCUCUGAUCGUGUGAAGGUUUUGACUUAUUUUUAUGAGUGUUAUCUUAUCGCUUAUGAUUUACGAUAGAGCUGGCUUGAAGGCUU
.(((...............(((.......)))...((((((.(((((...((((....))))....(((((((((.........)))))))))..))))))))))).........))).. (-24.50 = -24.90 +   0.40)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:42 2006