Locus 2298

Sequence ID 3L_DroMel_CAF1
Location 6,465,267 – 6,465,366
Length 99
Max. P 0.961983
window3548 window3549

overview

Window 8

Location 6,465,267 – 6,465,366
Length 99
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 87.97
Mean single sequence MFE -31.72
Consensus MFE -26.65
Energy contribution -27.07
Covariance contribution 0.42
Combinations/Pair 1.14
Mean z-score -1.55
Structure conservation index 0.84
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6465267 99 + 23771897
---UAUAAAUCGCCUGGGCGGUGCCUUCAGUUGCAAGGCACCCAUUUCCAAGGACGAGGAAAUGCUGAUUAGAUUUUUAUUUGGCCGCGGCAAACCAAUACU
---........((((((.((((((((((....).))))))))(((((((........)))))))..................).))).)))........... ( -31.40)
>DroSec_CAF1 1 102 + 1
CUAAAUAAAUCGCCUGGGCGGUGCCUUCAGUUGCAAGGCACCCAUUUCCAGGGACGAGGAAAUGCUGAUUAGAUUUUUAUUUGGCCGCGGCAAACCAAUACU
.........(((((((((.(((((((((....).))))))))....))))))..)))((...(((((.((((((....))))))...)))))..))...... ( -31.60)
>DroSim_CAF1 1 102 + 1
CUAAAUAAAUCGCCUGGGCGGUGCCUUAAGUUGCAAGGCACCCAUUUCCAGGGACGAGGAAAUGCUGAUUAGAUUUUUAUUUGGCCGCGGCAAACCAAGACU
.........(((((((((.((((((((.......))))))))....))))))..)))((...(((((.((((((....))))))...)))))..))...... ( -31.20)
>DroEre_CAF1 1 102 + 1
CUAAAUAAAUCGCCUGGGCGGUGCCUUUAGCUGCAAGGCACCCAUUUCCAGGGACGAGGAAAUGCUGAUUAGAUUUUUGUUUGGCCGCGGCAAGCCAAUACU
.........(((((((((.((((((((.......))))))))....))))))..)))((...(((((.((((((....))))))...)))))..))...... ( -32.40)
>DroYak_CAF1 1 102 + 1
CUAAAUAAAUCGCCUGGGUGGUGCCUUUAGCUGCAAGGCACCAAUUUCCAGGGACGAGGAAAUGCUGAUUAGAUUUUUGUUUGGCCGCGGCAAACCAAUACU
.........((((((((((((((((((.......)))))))))...))))))..)))((...(((((.((((((....))))))...)))))..))...... ( -33.20)
>DroAna_CAF1 1 102 + 1
CUAGCAGAACCGCCUGGGCGGAGCCUUCAGCUGCAGAGCACCCAUCUCCAAGGACGAGGAAAUACUGAGAAGGCUCUUAUUUGGUCGUGGCAAACUCAAUGU
...((.((.((((....))(((((((((.(((....)))..((.((((....)).)))).........))))))))).....))))...))........... ( -30.50)
>consensus
CUAAAUAAAUCGCCUGGGCGGUGCCUUCAGCUGCAAGGCACCCAUUUCCAGGGACGAGGAAAUGCUGAUUAGAUUUUUAUUUGGCCGCGGCAAACCAAUACU
...........(((..(((((((((((.......))))))))(((((((........)))))))...................)))..)))........... (-26.65 = -27.07 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 6,465,267 – 6,465,366
Length 99
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 87.97
Mean single sequence MFE -33.32
Consensus MFE -29.22
Energy contribution -28.87
Covariance contribution -0.35
Combinations/Pair 1.29
Mean z-score -2.35
Structure conservation index 0.88
SVM decision value 1.53
SVM RNA-class probability 0.961983
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6465267 99 - 23771897
AGUAUUGGUUUGCCGCGGCCAAAUAAAAAUCUAAUCAGCAUUUCCUCGUCCUUGGAAAUGGGUGCCUUGCAACUGAAGGCACCGCCCAGGCGAUUUAUA---
.........(((((..(((...................(((((((........)))))))((((((((.......)))))))))))..)))))......--- ( -33.80)
>DroSec_CAF1 1 102 - 1
AGUAUUGGUUUGCCGCGGCCAAAUAAAAAUCUAAUCAGCAUUUCCUCGUCCCUGGAAAUGGGUGCCUUGCAACUGAAGGCACCGCCCAGGCGAUUUAUUUAG
.........(((((..(((...................(((((((........)))))))((((((((.......)))))))))))..)))))......... ( -33.80)
>DroSim_CAF1 1 102 - 1
AGUCUUGGUUUGCCGCGGCCAAAUAAAAAUCUAAUCAGCAUUUCCUCGUCCCUGGAAAUGGGUGCCUUGCAACUUAAGGCACCGCCCAGGCGAUUUAUUUAG
.........(((((..(((...................(((((((........)))))))(((((((((.....))))))))))))..)))))......... ( -34.60)
>DroEre_CAF1 1 102 - 1
AGUAUUGGCUUGCCGCGGCCAAACAAAAAUCUAAUCAGCAUUUCCUCGUCCCUGGAAAUGGGUGCCUUGCAGCUAAAGGCACCGCCCAGGCGAUUUAUUUAG
.((.((((((......))))))))..(((((.......(((((((........)))))))((((((((.......))))))))((....)))))))...... ( -35.80)
>DroYak_CAF1 1 102 - 1
AGUAUUGGUUUGCCGCGGCCAAACAAAAAUCUAAUCAGCAUUUCCUCGUCCCUGGAAAUUGGUGCCUUGCAGCUAAAGGCACCACCCAGGCGAUUUAUUUAG
.((.((((((......)))))))).......................((((((((....(((((((((.......))))))))).))))).)))........ ( -30.10)
>DroAna_CAF1 1 102 - 1
ACAUUGAGUUUGCCACGACCAAAUAAGAGCCUUCUCAGUAUUUCCUCGUCCUUGGAGAUGGGUGCUCUGCAGCUGAAGGCUCCGCCCAGGCGGUUCUGCUAG
......(((..(((............((((((((.....((((((........))))))((.(((...))).)))))))))).((....)))))...))).. ( -31.80)
>consensus
AGUAUUGGUUUGCCGCGGCCAAAUAAAAAUCUAAUCAGCAUUUCCUCGUCCCUGGAAAUGGGUGCCUUGCAACUGAAGGCACCGCCCAGGCGAUUUAUUUAG
....((((((......))))))....(((((.......(((((((........)))))))((((((((.......))))))))((....)))))))...... (-29.22 = -28.87 +  -0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:57 2006