Locus 6227

Sequence ID 3L_DroMel_CAF1
Location 16,543,683 – 16,543,792
Length 109
Max. P 0.779778
window9990 window9991

overview

Window 0

Location 16,543,683 – 16,543,792
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.53
Mean single sequence MFE -27.27
Consensus MFE -19.23
Energy contribution -20.15
Covariance contribution 0.92
Combinations/Pair 1.20
Mean z-score -1.23
Structure conservation index 0.71
SVM decision value 0.06
SVM RNA-class probability 0.561931
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16543683 109 + 23771897
--------AUUGUCAUCUCGAGGUUGCAAUUGUUUACCAGGUGUGCAAUCUGAUCAAAGCAAUUGCGCACGAGGAAAACGUGCUCCGUG---UUAAUGUACUGGAUCACAUAGAAUGUUA
--------....((.(((((..((.((((((((((..(((((.....)))))....)))))))))))).))))).....(((.((((.(---(......)))))).)))...))...... ( -30.10)
>DroPse_CAF1 33989 113 + 1
UUUCGGGGAUUUGUAUCUCCAGAUUGCAACAGUGCACUAAAUACGCAAUCUGUUCGAAGCAGUUGCGCACUAGAAAAAUGUGCUCCUUUCCGUCAAACUAAU-------AAAGGAUUGAA
....((((((....))))))....((((....))))........((((.((((.....))))))))((((.........))))((((((.............-------))))))..... ( -26.42)
>DroSec_CAF1 3808 109 + 1
--------AUUGUCAUCUCUAGGUUGCAAUUGUUUACCAGGUGUGCAAUCUGAUCAAAGCAAUUGCGCACGAGGAAAACGUGCUCCGUG---UUAAUGUACUGGAUAACAUAGAAUGUUA
--------.....(((.((((.(((((((((((((..(((((.....)))))....))))))))))(((((.......)))))((((.(---(......)))))).))).)))))))... ( -29.60)
>DroSim_CAF1 4375 109 + 1
--------AUUGUCAUCUCUAGGUUGCAAUUGUUUACCAGGUGUGCAAUCUGAUCAAAGCAAUUGCGCACGAGGAAAACGUGCUCCGUG---UUAAUGUACUGGAUAACAUAGAAUGUUA
--------.....(((.((((.(((((((((((((..(((((.....)))))....))))))))))(((((.......)))))((((.(---(......)))))).))).)))))))... ( -29.60)
>DroEre_CAF1 3822 109 + 1
--------AUAGUCAUCUCUAGGUUGCAAUUGUUUACCAAAUGUGCAAUUUGAUCAAAGCAAUUGCGCACGAGGAAAACGUGCUCCGUG---UUAAUAUACUGCAUCACAAAGAGUGUUA
--------.....((.((((.((..((((((((((..(((((.....)))))....))))))))))(((((.......))))).))(((---(....))))..........))))))... ( -26.40)
>DroYak_CAF1 3851 109 + 1
--------AUAGUCAUCUCUAGGUUGCAAUUGUUUACCAAAUGUGUGAUUUGAUCAAAGCAGUUACGCACGAGGAAAACGUGCUCCGUC---UUAAUGUACUGGAUCACACAAUAUGUUA
--------.(((......)))(((.((....))..)))...(((((((..................(((((.......)))))((((((---.....).)).))))))))))........ ( -21.50)
>consensus
________AUUGUCAUCUCUAGGUUGCAAUUGUUUACCAAAUGUGCAAUCUGAUCAAAGCAAUUGCGCACGAGGAAAACGUGCUCCGUG___UUAAUGUACUGGAUCACAUAGAAUGUUA
.................(((((...((((((((((..(((((.....)))))....))))))))))(((((.......))))).................)))))............... (-19.23 = -20.15 +   0.92)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 16,543,683 – 16,543,792
Length 109
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.53
Mean single sequence MFE -26.53
Consensus MFE -17.68
Energy contribution -17.43
Covariance contribution -0.25
Combinations/Pair 1.27
Mean z-score -1.80
Structure conservation index 0.67
SVM decision value 0.55
SVM RNA-class probability 0.779778
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16543683 109 - 23771897
UAACAUUCUAUGUGAUCCAGUACAUUAA---CACGGAGCACGUUUUCCUCGUGCGCAAUUGCUUUGAUCAGAUUGCACACCUGGUAAACAAUUGCAACCUCGAGAUGACAAU--------
..........(((.((((.((......)---)..((.(((((.......)))))(((((((.(((.(((((.........)))))))))))))))..))..).))).)))..-------- ( -26.70)
>DroPse_CAF1 33989 113 - 1
UUCAAUCCUUU-------AUUAGUUUGACGGAAAGGAGCACAUUUUUCUAGUGCGCAACUGCUUCGAACAGAUUGCGUAUUUAGUGCACUGUUGCAAUCUGGAGAUACAAAUCCCCGAAA
(((..(((.((-------(......))).)))..(((((.((((.....)))).))...((..((...(((((((((....(((....))).)))))))))..))..))..)))..))). ( -27.50)
>DroSec_CAF1 3808 109 - 1
UAACAUUCUAUGUUAUCCAGUACAUUAA---CACGGAGCACGUUUUCCUCGUGCGCAAUUGCUUUGAUCAGAUUGCACACCUGGUAAACAAUUGCAACCUAGAGAUGACAAU--------
..........((((((((.((......)---)..((.(((((.......)))))(((((((.(((.(((((.........)))))))))))))))..))..).)))))))..-------- ( -28.50)
>DroSim_CAF1 4375 109 - 1
UAACAUUCUAUGUUAUCCAGUACAUUAA---CACGGAGCACGUUUUCCUCGUGCGCAAUUGCUUUGAUCAGAUUGCACACCUGGUAAACAAUUGCAACCUAGAGAUGACAAU--------
..........((((((((.((......)---)..((.(((((.......)))))(((((((.(((.(((((.........)))))))))))))))..))..).)))))))..-------- ( -28.50)
>DroEre_CAF1 3822 109 - 1
UAACACUCUUUGUGAUGCAGUAUAUUAA---CACGGAGCACGUUUUCCUCGUGCGCAAUUGCUUUGAUCAAAUUGCACAUUUGGUAAACAAUUGCAACCUAGAGAUGACUAU--------
...((((((..(((.((........)).---)))((.(((((.......)))))(((((((.(((.(((((((.....)))))))))))))))))..)).)))).)).....-------- ( -26.40)
>DroYak_CAF1 3851 109 - 1
UAACAUAUUGUGUGAUCCAGUACAUUAA---GACGGAGCACGUUUUCCUCGUGCGUAACUGCUUUGAUCAAAUCACACAUUUGGUAAACAAUUGCAACCUAGAGAUGACUAU--------
...((...((((((((.......(((((---..(((.(((((.......)))))....)))..)))))...))))))))..))((((....)))).................-------- ( -21.60)
>consensus
UAACAUUCUAUGUGAUCCAGUACAUUAA___CACGGAGCACGUUUUCCUCGUGCGCAAUUGCUUUGAUCAGAUUGCACACCUGGUAAACAAUUGCAACCUAGAGAUGACAAU________
..................................((.(((((.......)))))(((((((.(((.(((((.........)))))))))))))))..))..................... (-17.68 = -17.43 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:13 2006