Locus 4512

Sequence ID 2L_DroMel_CAF1
Location 12,945,232 – 12,945,337
Length 105
Max. P 0.898731
window7096 window7097

overview

Window 6

Location 12,945,232 – 12,945,337
Length 105
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 88.89
Mean single sequence MFE -31.58
Consensus MFE -20.98
Energy contribution -21.74
Covariance contribution 0.76
Combinations/Pair 1.12
Mean z-score -2.72
Structure conservation index 0.66
SVM decision value 0.39
SVM RNA-class probability 0.716032
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12945232 105 + 22407834
AAAGGGAGGUGCAGCAGGGGAUCAAAAGCAACAAAAUUAACACAAACUAUUGCUGCACACCACAAUGUAUCUAAAUUAUUGUGGCUGCUUU------------GCUGCUGCUGAUGG
..........(((((((.(((.....(((((..................)))))(((..((((((((.........)))))))).))))))------------.)))))))...... ( -27.87)
>DroSec_CAF1 117112 105 + 1
AAAGGGAGGAGCAGCAGGGGAUCAAAAGCAACAAAAUUAACACAAACUAUUGUUGCACACCACAAUGUAUCUAAAUUAUUGUGGCUGCUCU------------GCUGCUGCUGAUGG
......((.((((((((((........(((((((...............))))))).((((((((((.........)))))))).))))))------------)))))).))..... ( -37.16)
>DroSim_CAF1 122334 102 + 1
AAAGGGAGGAGCAGCAGGGGAUCAAAAGCAACAAAAUUAACACAAACUAUUGUUGCACACCACAAUGUAUCUAAAUUAUUGUGGCUGCUCU------------GCU---GCUGAUGG
.........((((((((((........(((((((...............))))))).((((((((((.........)))))))).))))))------------)))---)))..... ( -34.06)
>DroEre_CAF1 124124 105 + 1
AAUGGGAGAAGCAUCCGGGAAUCAAAAGCAAGAAAAAUAACACAAACUUUUGUUGCACACCACAAUGUAUCUAAAUUAUUGUGGCUGCUCC------------GCUGCUGCUGAUGG
.((.((...((((..((((........((((.((((...........)))).)))).((((((((((.........)))))))).)).)))------------).)))).)).)).. ( -24.90)
>DroYak_CAF1 119428 117 + 1
AAUGGGAGGAGCAUUCGGGAAUCAAAAGCAACAAAAUUAACACAAACUUUUGUUGCACACCACAAUGUAUCUAAAUUAUUGUGGCUGCUCUGAUGCUGCUGGUGCUGCUGCUGAUGG
...((.((.(((((((((..((((...(((((((((...........))))))))).((((((((((.........)))))))).))...)))).)))..)))))).)).))..... ( -33.90)
>consensus
AAAGGGAGGAGCAGCAGGGGAUCAAAAGCAACAAAAUUAACACAAACUAUUGUUGCACACCACAAUGUAUCUAAAUUAUUGUGGCUGCUCU____________GCUGCUGCUGAUGG
.......((((((((............(((((((...............)))))))....(((((((.........)))))))))))))))............((....))...... (-20.98 = -21.74 +   0.76)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,945,232 – 12,945,337
Length 105
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 88.89
Mean single sequence MFE -30.16
Consensus MFE -21.12
Energy contribution -21.76
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -2.83
Structure conservation index 0.70
SVM decision value 1.00
SVM RNA-class probability 0.898731
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12945232 105 - 22407834
CCAUCAGCAGCAGC------------AAAGCAGCCACAAUAAUUUAGAUACAUUGUGGUGUGCAGCAAUAGUUUGUGUUAAUUUUGUUGCUUUUGAUCCCCUGCUGCACCUCCCUUU
......(((((((.------------...(((((((((((...........)))))))).)))((((((((..(......)..)))))))).........))))))).......... ( -32.10)
>DroSec_CAF1 117112 105 - 1
CCAUCAGCAGCAGC------------AGAGCAGCCACAAUAAUUUAGAUACAUUGUGGUGUGCAACAAUAGUUUGUGUUAAUUUUGUUGCUUUUGAUCCCCUGCUGCUCCUCCCUUU
.....((((((((.------------.((.((((((((((...........))))))))..(((((((.((((......)))))))))))...)).))..))))))))......... ( -32.10)
>DroSim_CAF1 122334 102 - 1
CCAUCAGC---AGC------------AGAGCAGCCACAAUAAUUUAGAUACAUUGUGGUGUGCAACAAUAGUUUGUGUUAAUUUUGUUGCUUUUGAUCCCCUGCUGCUCCUCCCUUU
.....(((---(((------------((.(((.(((((((...........))))))))))(((((((.((((......)))))))))))..........))))))))......... ( -31.10)
>DroEre_CAF1 124124 105 - 1
CCAUCAGCAGCAGC------------GGAGCAGCCACAAUAAUUUAGAUACAUUGUGGUGUGCAACAAAAGUUUGUGUUAUUUUUCUUGCUUUUGAUUCCCGGAUGCUUCUCCCAUU
.....((.((((.(------------((.(((((((((((...........)))))))).)))..(((((((..(..........)..)))))))....)))..)))).))...... ( -27.20)
>DroYak_CAF1 119428 117 - 1
CCAUCAGCAGCAGCACCAGCAGCAUCAGAGCAGCCACAAUAAUUUAGAUACAUUGUGGUGUGCAACAAAAGUUUGUGUUAAUUUUGUUGCUUUUGAUUCCCGAAUGCUCCUCCCAUU
.....((((((.((....)).))(((((((((.(((((((...........))))))))))(((((((((...........))))))))).)))))).......))))......... ( -28.30)
>consensus
CCAUCAGCAGCAGC____________AGAGCAGCCACAAUAAUUUAGAUACAUUGUGGUGUGCAACAAUAGUUUGUGUUAAUUUUGUUGCUUUUGAUCCCCUGCUGCUCCUCCCUUU
..(((((.((((((...............(((((((((((...........)))))))).))).((((....)))).........)))))).))))).................... (-21.12 = -21.76 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:36 2006