Locus 5979

Sequence ID 3L_DroMel_CAF1
Location 15,986,398 – 15,986,558
Length 160
Max. P 0.999812
window9559 window9560 window9561

overview

Window 9

Location 15,986,398 – 15,986,518
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.15
Mean single sequence MFE -47.84
Consensus MFE -44.54
Energy contribution -45.54
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.93
SVM decision value 3.28
SVM RNA-class probability 0.998907
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15986398 120 + 23771897
CCGUCAUCAUCUUCCGCUGGGGCAUCGCAUCAGCUGGCGCUGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCACAACUUUGAUGCGGCCAA
(((.(((((....((((((.(.(((((((.((((....)))).))).......(((((((.(((........))).)))))))..))))...).))))))........)))))))).... ( -48.90)
>DroSec_CAF1 15422 119 + 1
-CGUCAUCAUCUUCCGCUGGGGCAUCGCAUCAGCUGGCGCUGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAA
-..(((((.(((.((((((.((((..(((.((((.(((((........).)))).))))..)))....)))).)).)))).))).))))).....(((.(((.(.....).))).))).. ( -48.50)
>DroSim_CAF1 16497 119 + 1
-CGUCAUCAUCUUCCGCUGGGGCAUCGCAUCAGCUGGCGCUGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAA
-..(((((.(((.((((((.((((..(((.((((.(((((........).)))).))))..)))....)))).)).)))).))).))))).....(((.(((.(.....).))).))).. ( -48.50)
>DroEre_CAF1 16333 118 + 1
--CUCAUCAUCUUCCGCUGGGGCAUCGCAUCAGCUGGCGCUGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAA
--.(((((.(((.((((((.((((..(((.((((.(((((........).)))).))))..)))....)))).)).)))).))).))))).....(((.(((.(.....).))).))).. ( -48.40)
>DroYak_CAF1 15888 113 + 1
UGGUCAUCAUCUUCCGCUGGGGCACCGCAUCAGCUGGCGCUGCUGCUUGUUGCU-------UGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAA
......((((((((.((.(.(((.((((....)).)).))).).)).((((((.-------(((........))).)))))))))))))).....(((.(((.(.....).))).))).. ( -44.90)
>consensus
_CGUCAUCAUCUUCCGCUGGGGCAUCGCAUCAGCUGGCGCUGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAA
...(((((.(((.((((((.((((..(((.((((.(((((........).)))).))))..)))....)))).)).)))).))).))))).....(((.(((.(.....).))).))).. (-44.54 = -45.54 +   1.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,986,398 – 15,986,518
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.15
Mean single sequence MFE -46.06
Consensus MFE -42.50
Energy contribution -43.10
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.92
SVM decision value 4.14
SVM RNA-class probability 0.999812
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15986398 120 - 23771897
UUGGCCGCAUCAAAGUUGUGCCGCCGCGUUUCAUCUUCUGCCGCAUGCAGCAAAUAGCAAGCAGCAAGCAACAAGCAGCAGCGCCAGCUGAUGCGAUGCCCCAGCGGAAGAUGAUGACGG
..(((.((((.......)))).))).(((((((((((((((.((.(((.((.....))..)))))..(((....(((.((((....)))).)))..)))....))))))))))).)))). ( -48.50)
>DroSec_CAF1 15422 119 - 1
UUGGCCGCAUCAAAGUGUUGCCGCCGCGUUUCAUCUUCUGCCGCAUGCAGCAAAUAGCAAGCAGCAAGCAACAAGCAGCAGCGCCAGCUGAUGCGAUGCCCCAGCGGAAGAUGAUGACG-
..(((.(((.(.....).))).))).(((((((((((((((.((.(((.((.....))..)))))..(((....(((.((((....)))).)))..)))....))))))))))).))))- ( -46.90)
>DroSim_CAF1 16497 119 - 1
UUGGCCGCAUCAAAGUGUUGCCGCCGCGUUUCAUCUUCUGCCGCAUGCAGCAAAUAGCAAGCAGCAAGCAACAAGCAGCAGCGCCAGCUGAUGCGAUGCCCCAGCGGAAGAUGAUGACG-
..(((.(((.(.....).))).))).(((((((((((((((.((.(((.((.....))..)))))..(((....(((.((((....)))).)))..)))....))))))))))).))))- ( -46.90)
>DroEre_CAF1 16333 118 - 1
UUGGCCGCAUCAAAGUGUUGCCGCCGCGUUUCAUCUUCUGCCGCAUGCAGCAAAUAGCAAGCAGCAAGCAACAAGCAGCAGCGCCAGCUGAUGCGAUGCCCCAGCGGAAGAUGAUGAG--
..(((.(((.(.....).))).))).....(((((((((((.((.(((.((.....))..)))))..(((....(((.((((....)))).)))..)))....)))))))))))....-- ( -44.30)
>DroYak_CAF1 15888 113 - 1
UUGGCCGCAUCAAAGUGUUGCCGCCGCGUUUCAUCUUCUGCCGCAUGCAGCAAAUAGCA-------AGCAACAAGCAGCAGCGCCAGCUGAUGCGGUGCCCCAGCGGAAGAUGAUGACCA
..(((.(((.(.....).))).)))(.((((((((((((((.((.(((........)))-------.)).....(((.((((....)))).)))((....)).))))))))))).)))). ( -43.70)
>consensus
UUGGCCGCAUCAAAGUGUUGCCGCCGCGUUUCAUCUUCUGCCGCAUGCAGCAAAUAGCAAGCAGCAAGCAACAAGCAGCAGCGCCAGCUGAUGCGAUGCCCCAGCGGAAGAUGAUGACG_
..(((.(((.........))).)))..((((((((((((((.((.(((........))).)).....(((....(((.((((....)))).)))..)))....))))))))))).))).. (-42.50 = -43.10 +   0.60)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,986,438 – 15,986,558
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.00
Mean single sequence MFE -41.36
Consensus MFE -37.58
Energy contribution -38.78
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.91
SVM decision value 2.15
SVM RNA-class probability 0.989221
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15986438 120 + 23771897
UGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCACAACUUUGAUGCGGCCAAGAUCAAAGCCGCCGAUUGUUUACAUAAUAGUGGCCUUUGA
.((..((.(((..(((((((.(((........))).)))))))...(((((((.(((((((.....((((((.(......))))))))))))))...)))).))))))))..))...... ( -41.50)
>DroSec_CAF1 15461 120 + 1
UGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAAGAUCAAAGCCGCCGAUUGUUUACAUAAUAGUGGCCUUUGA
.(((((.(((((((.(((((((.((.(((((((....)))))))))....)).)))))))))))).......))))).....((((((((((..(((((....))))).)))).)))))) ( -42.30)
>DroSim_CAF1 16536 120 + 1
UGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAAGAUCAAAGCCGCCGAUUGUUUACAUAAUAGUGGCCUUUGA
.(((((.(((((((.(((((((.((.(((((((....)))))))))....)).)))))))))))).......))))).....((((((((((..(((((....))))).)))).)))))) ( -42.30)
>DroEre_CAF1 16371 120 + 1
UGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAAGAUCAAAGCCGCCGAUUGUUUACAUAAUAGUGGCCUUUGA
.(((((.(((((((.(((((((.((.(((((((....)))))))))....)).)))))))))))).......))))).....((((((((((..(((((....))))).)))).)))))) ( -42.30)
>DroYak_CAF1 15928 113 + 1
UGCUGCUUGUUGCU-------UGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAAGAUCAAAGCCGCCGAUUGUUUACAUAAUAGUGGCCUUUGA
.((..((((((((.-------(((........))).))))))....(((((((.(((((((.....((((((.(......))))))))))))))...)))).)))...))..))...... ( -38.40)
>consensus
UGCUGCUUGUUGCUUGCUGCUUGCUAUUUGCUGCAUGCGGCAGAAGAUGAAACGCGGCGGCAACACUUUGAUGCGGCCAAGAUCAAAGCCGCCGAUUGUUUACAUAAUAGUGGCCUUUGA
.((..((.(((..(((((((.(((........))).)))))))...(((((((.(((((((.....((((((.(......))))))))))))))...)))).))))))))..))...... (-37.58 = -38.78 +   1.20)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:52 2006