Locus 390

Sequence ID 2L_DroMel_CAF1
Location 1,206,598 – 1,206,756
Length 158
Max. P 0.978660
window619 window620

overview

Window 9

Location 1,206,598 – 1,206,716
Length 118
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 93.43
Mean single sequence MFE -41.98
Consensus MFE -34.54
Energy contribution -35.14
Covariance contribution 0.60
Combinations/Pair 1.06
Mean z-score -2.15
Structure conservation index 0.82
SVM decision value 1.82
SVM RNA-class probability 0.978660
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1206598 118 + 22407834
GGUCGGCUGCUUUUGGCCUU-UUCCCCCGGUGUUUGUCUUGGCCACUGCCAGAUGAGAACCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUCCGUGCUAGCCAAUACA
....((((((..........-......((((.((..(((.(((....))))))..)).)))).((((...(((((.((((((((.....))))))))))))))))))).))))...... ( -39.70)
>DroSec_CAF1 2311 118 + 1
GGUCGCCUGCUUUUGGCCUU-UUCCCCCGGUGUUUGUCUUGGCCACGGCCAGAUGAGAACCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUCCGUGCUAGCCAAUACA
............(((((...-......((((.((..(((.(((....))))))..)).))))...((((((....(((((((((.....))))))))).....)))))).))))).... ( -39.70)
>DroSim_CAF1 2302 118 + 1
GGUCGCCUGCCUUUGGCCUU-UUUCCCCGGUGUUUGUCUUGGCCACGGCCAGAUGAGAACCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUCCGUGCUAGCCAAUACA
(((.....))).(((((...-......((((.((..(((.(((....))))))..)).))))...((((((....(((((((((.....))))))))).....)))))).))))).... ( -41.10)
>DroEre_CAF1 2236 119 + 1
GCUCGGCUGCUUUUGGCCCUUUUCCCUCGCUGUUUGUCUUGGCCACGGCCAGAUGAGAGCCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUUCGGGCUGGCCAAUACA
....((((......(((((....((((((((.((..(((.(((....))))))..)))).)))).))...((...(((((((((.....)))))))))....)))))))))))...... ( -45.10)
>DroYak_CAF1 2387 119 + 1
GGUCGGCUGCUUUUGGCCUUUUUCCCCCGCUGUUUGUCUUGGCCACGGCCAGCUGAGUGCCGAGCAGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUUCGGGCUGGCCAAUACA
((((((((......)))).......(((((((((((...((((....))))((.....))))))))))..((...(((((((((.....)))))))))....)))))..))))...... ( -44.30)
>consensus
GGUCGGCUGCUUUUGGCCUU_UUCCCCCGGUGUUUGUCUUGGCCACGGCCAGAUGAGAACCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUCCGUGCUAGCCAAUACA
............(((((..........((((.(((((((.(((....)))))))))).))))...((((((....(((((((((.....))))))))).....)))))).))))).... (-34.54 = -35.14 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 0

Location 1,206,637 – 1,206,756
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.32
Mean single sequence MFE -37.62
Consensus MFE -17.35
Energy contribution -17.47
Covariance contribution 0.11
Combinations/Pair 1.19
Mean z-score -2.30
Structure conservation index 0.46
SVM decision value 0.49
SVM RNA-class probability 0.754747
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1206637 119 + 22407834
GGC-CACUGCCAGAUGAGAACCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUCCGUGCUAGCCAAUACAUAAUGCAAUAGAUAUGGCCAAAUGGCUGCUAAGAAGGCAG
...-..(((((...........(.((((((((....(((((((((.....))))))))).....)))))).)))..............(((....((((....)))).)))....))))) ( -32.60)
>DroSec_CAF1 2350 119 + 1
GGC-CACGGCCAGAUGAGAACCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUCCGUGCUAGCCAAUACAUACUGCAAUAGCUAUGGCCAAAUGGCUGCUAAGAAGGCAG
(((-((.(((((....((......(((((((((((((((((((((.....)))))))))......((....)))))).)))))))).....)).)))))...)))))(((.....))).. ( -41.40)
>DroSim_CAF1 2341 119 + 1
GGC-CACGGCCAGAUGAGAACCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUCCGUGCUAGCCAAUACAUAAUGCAAUAGAUAUGGCCAAAUGGCUGCUAAGAAGGCAG
(((-(((((...........))).(((.(((((((((((((((((.....)))))))))......((....)))))).)))).)))........)))))......(((((.....))))) ( -33.90)
>DroEre_CAF1 2276 97 + 1
GGC-CACGGCCAGAUGAGAGCCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUUCGGGCUGGCCAAUACAUAAUGCAAUAGC----------------------AGGCAG
.((-(..((((((.((((((((....))).......(((((((((.....)))))))))..)))))..)))))).........(((....))----------------------)))).. ( -37.10)
>DroYak_CAF1 2427 119 + 1
GGC-CACGGCCAGCUGAGUGCCGAGCAGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUUCGGGCUGGCCAAUACAUAAUGCAAUAGCUGUGGGGCAAUGGCUGCUAAAAAGGCAG
.((-(..((((((((.(.(((...))).).(((...(((((((((.....)))))))))....)))))))))))....((((..((....)))))).))).....(((((.....))))) ( -42.60)
>DroPer_CAF1 2767 110 + 1
GGCCCACGUGCGGAUGC-------GUGAUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUUUAGGCUGUCCAUUGUU---UGCGAGUGCCAGAGCGGGACGACUAGUGUGUGGCCAG
((((.(((..(((((((-------.(((...(((((.((((((((.....)))))))))))))))).)).))))......---.....((.((.....)).)).....)..))))))).. ( -38.10)
>consensus
GGC_CACGGCCAGAUGAGAACCGAGCGGUAUGAUUGAUGUUGCAACAAUUUUGCAGCAUAAUUCCGGGCUAGCCAAUACAUAAUGCAAUAGCUAUGGCCAAAUGGCUGCUAAGAAGGCAG
........(((.............(((.(((((((((((((((((.....)))))))))........(....))))).)))).))).........((........))........))).. (-17.35 = -17.47 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:47 2006