Locus 1515

Sequence ID 3L_DroMel_CAF1
Location 4,356,683 – 4,356,801
Length 118
Max. P 0.974521
window2357 window2358

overview

Window 7

Location 4,356,683 – 4,356,801
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.22
Mean single sequence MFE -31.58
Consensus MFE -24.68
Energy contribution -25.64
Covariance contribution 0.96
Combinations/Pair 1.22
Mean z-score -2.22
Structure conservation index 0.78
SVM decision value 1.31
SVM RNA-class probability 0.940916
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4356683 118 + 23771897
UUAUAUAUAUACAAAUGCCUGGCAGGUGGGAAGCACUAUGCCAUAUAUAAUAUGUGGCAGAUGGGUGUGAAUGGAUGUGGCAGGAGCAAGGAGCGAGCCAGGCUUUUGGGU--GCUAUAA
...((((((..((((.(((((((.........(((((.(((((((((...)))))))))....))))).......(((.((....)).....))).))))))).))))..)--).)))). ( -38.80)
>DroSec_CAF1 7354 115 + 1
AUAUAUAUAUACAAAUGCCUGGUAGGUGGGAAGUUCUAUGCCACAUAUAAUAUGUGGCAGAUGGGUGUGAAUGAAAGUGGCAGGAU-----GGCGAGCCAGGCUUUUGGGUUGGCUAUAA
.((((..((..((((.(((((((..((.(...(..(..(((((((((...)))))))))...)..)((..((....)).))....)-----.))..))))))).))))...))..)))). ( -32.80)
>DroSim_CAF1 7325 115 + 1
AUAUAUAUAUACAAAUGCCUGGCAGGUGGCAAGUUCUAUGCCACGUAUAAUAUGUGGCAGAUGGGUGUGAAUGAAAGUGGCAGGAU-----GGCGAGCCAGGCUUUUGGGUUGGCUAUAA
.((((..((..((((.(((((((...((.((.(..(..(((((((((...)))))))))...)..)((..((....)).))....)-----).)).))))))).))))...))..)))). ( -35.50)
>DroEre_CAF1 7389 107 + 1
AUA------UACAAAUGGCAGGCAGGUGGGAAACACUAUGCCAAAUGUAAUAUAUGGCAGAUGGGUGUGAAUAACAGUGGCAGGAU-----GGCAAGCAAAGCUUUUGGGU--GCUAUAA
...------((((..(((((....((((.....)))).)))))..))))...((((((.....(.(((.....))).).((..((.-----(((.......))).))..))--)))))). ( -25.00)
>DroYak_CAF1 7416 113 + 1
AUAUAUAAAUACAAAUGCCUGGCAGGUGGGAAGUACUAUGCCAAAUGUAAUAUAUGGCAGAUGGGUGUGAAUAACGGUGGCAGGAU-----GGCAGGCAAAGCUUUUGGGU--GCUAUAA
...............((((((.((.((((......))))((((..(((.((.((((.(.....).)))).)).))).))))....)-----).)))))).(((........--))).... ( -25.80)
>consensus
AUAUAUAUAUACAAAUGCCUGGCAGGUGGGAAGUACUAUGCCAAAUAUAAUAUGUGGCAGAUGGGUGUGAAUGAAAGUGGCAGGAU_____GGCGAGCCAGGCUUUUGGGU__GCUAUAA
...........((((.(((((((.........(((((.(((((((((...)))))))))....)))))...........((...........))..))))))).))))............ (-24.68 = -25.64 +   0.96)

alignment

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secondary structure

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dotplot

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Window 8

Location 4,356,683 – 4,356,801
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.22
Mean single sequence MFE -22.17
Consensus MFE -15.96
Energy contribution -16.72
Covariance contribution 0.76
Combinations/Pair 1.06
Mean z-score -2.81
Structure conservation index 0.72
SVM decision value 1.73
SVM RNA-class probability 0.974521
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4356683 118 - 23771897
UUAUAGC--ACCCAAAAGCCUGGCUCGCUCCUUGCUCCUGCCACAUCCAUUCACACCCAUCUGCCACAUAUUAUAUAUGGCAUAGUGCUUCCCACCUGCCAGGCAUUUGUAUAUAUAUAA
.((((..--...((((.(((((((..((.....))..................(((.....(((((.(((...))).)))))..)))..........))))))).))))....))))... ( -26.00)
>DroSec_CAF1 7354 115 - 1
UUAUAGCCAACCCAAAAGCCUGGCUCGCC-----AUCCUGCCACUUUCAUUCACACCCAUCUGCCACAUAUUAUAUGUGGCAUAGAACUUCCCACCUACCAGGCAUUUGUAUAUAUAUAU
.((((.......((((.((((((...((.-----.....))....................(((((((((...)))))))))................)))))).))))......)))). ( -25.92)
>DroSim_CAF1 7325 115 - 1
UUAUAGCCAACCCAAAAGCCUGGCUCGCC-----AUCCUGCCACUUUCAUUCACACCCAUCUGCCACAUAUUAUACGUGGCAUAGAACUUGCCACCUGCCAGGCAUUUGUAUAUAUAUAU
.((((.......((((.(((((((..((.-----.....))...................................((((((.......))))))..))))))).))))......)))). ( -27.42)
>DroEre_CAF1 7389 107 - 1
UUAUAGC--ACCCAAAAGCUUUGCUUGCC-----AUCCUGCCACUGUUAUUCACACCCAUCUGCCAUAUAUUACAUUUGGCAUAGUGUUUCCCACCUGCCUGCCAUUUGUA------UAU
..(((((--(.....((((...))))((.-----.....))...)))))).....................((((..((((((((.((.....)))))..)))))..))))------... ( -15.40)
>DroYak_CAF1 7416 113 - 1
UUAUAGC--ACCCAAAAGCUUUGCCUGCC-----AUCCUGCCACCGUUAUUCACACCCAUCUGCCAUAUAUUACAUUUGGCAUAGUACUUCCCACCUGCCAGGCAUUUGUAUUUAUAUAU
....(((--........))).((((((.(-----(..........((.....)).......(((((...........)))))..............)).))))))............... ( -16.10)
>consensus
UUAUAGC__ACCCAAAAGCCUGGCUCGCC_____AUCCUGCCACUUUCAUUCACACCCAUCUGCCACAUAUUAUAUGUGGCAUAGUACUUCCCACCUGCCAGGCAUUUGUAUAUAUAUAU
............((((.(((((((..((...........))....................(((((...........)))))...............))))))).))))........... (-15.96 = -16.72 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:37 2006