Locus 3280

Sequence ID 3L_DroMel_CAF1
Location 9,618,907 – 9,619,024
Length 117
Max. P 0.815807
window5099 window5100

overview

Window 9

Location 9,618,907 – 9,619,024
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.23
Mean single sequence MFE -41.14
Consensus MFE -29.17
Energy contribution -30.31
Covariance contribution 1.14
Combinations/Pair 1.28
Mean z-score -1.71
Structure conservation index 0.71
SVM decision value 0.66
SVM RNA-class probability 0.815807
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9618907 117 + 23771897
AUCAGC---UGGCGAGGAUGAGGAGAUGCUAAGGAUAGCCUUUUUUAUAGGGCACUUCGUGCAUCAAUACUAUAUACCAGUGCUUUGCUGCACGGGCAGCAUUGGCAAUAUCCUCUCCGU
......---.((.(((((((....(((((...(((..(((((......)))))..)))..)))))...............((((.((((((....))))))..)))).))))))).)).. ( -43.30)
>DroPse_CAF1 13400 117 + 1
CAUGUC---CGGCGAUGAUGAGGAGAUGCUGCGCAUCGCCUUCUUCAUCGGGGACUUUGUGCACCAGUACUACAUUCCGAUACUCUGCUGCACGGGCAGCAUCGGCAACAUCCUCUCCGU
......---(((.(((((.((((.(((((...))))).))))..)))))(((((....((((....))))......((((.....((((((....)))))))))).....))))).))). ( -41.60)
>DroYak_CAF1 14695 117 + 1
UUCGGC---UGGCGAGGAUGAUGAGAUGCUAAGGAUAGCCUUCUUUAUAGGGGAUUUCGUGCACCAGUACUAUAUACCAGUGGUUUGCUGCACGGGCAGCAUUGGGAACAUCCUCUCCGU
......---.((.((((((((((((((((((....))))(((((....))))))))))))...((((((((((......)))))..(((((....))))))))))...))))))).)).. ( -40.50)
>DroMoj_CAF1 15893 117 + 1
UAUGUC---CGUCGAGGAUGAGGAAAUGCUGCGAAUCGCGUACCUCAUUGGCGAUAUUGUGAAUAGAUAUUACGUGCCCAUCAUCUGCUGCACGGGCAGCAUUGGCAACAUACUCUCCGU
......---......(((.(((..((((((((..(((((...........))))).................(((((.((.....))..))))).))))))))(....)...)))))).. ( -32.60)
>DroAna_CAF1 27682 120 + 1
CUCGGCGAGCGGCGAGGAUGAGGAGAUGCUGCGCAUCGCCUUUUUCAUCGGGGACGUUGUCCAUCAGUACUAUAUUCCCAUUCUGUGCUGCACCGGCAGCAUCGGCAACAUCCUCUCCGU
........((((.(((((((..(.((((((((((...)).........(((((((...))))..((((((..............))))))..)))))))))))..)..))))))).)))) ( -47.24)
>DroPer_CAF1 13405 117 + 1
CAUGUC---CGGCGAUGAUGAGGAGAUGCUGCGCAUCGCCUUCUUCAUCGGGGACUUUGUGCACCAGUACUACAUUCCGAUACUCUGCUGCACGGGCAGCAUCGGCAACAUCCUCUCCGU
......---(((.(((((.((((.(((((...))))).))))..)))))(((((....((((....))))......((((.....((((((....)))))))))).....))))).))). ( -41.60)
>consensus
CACGGC___CGGCGAGGAUGAGGAGAUGCUGCGCAUCGCCUUCUUCAUCGGGGACUUUGUGCACCAGUACUACAUUCCAAUACUCUGCUGCACGGGCAGCAUCGGCAACAUCCUCUCCGU
.........(((.(((((((....((((((((......((((.......))))...(((((((.(((.................))).))))))))))))))).....))))))).))). (-29.17 = -30.31 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 9,618,907 – 9,619,024
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.23
Mean single sequence MFE -38.47
Consensus MFE -26.66
Energy contribution -28.46
Covariance contribution 1.81
Combinations/Pair 1.20
Mean z-score -1.38
Structure conservation index 0.69
SVM decision value 0.24
SVM RNA-class probability 0.650566
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9618907 117 - 23771897
ACGGAGAGGAUAUUGCCAAUGCUGCCCGUGCAGCAAAGCACUGGUAUAUAGUAUUGAUGCACGAAGUGCCCUAUAAAAAAGGCUAUCCUUAGCAUCUCCUCAUCCUCGCCA---GCUGAU
..((.((((((......(((((((((.((((......)))).)))....))))))(((((...(((.(((..........)))....))).))))).....)))))).)).---...... ( -34.80)
>DroPse_CAF1 13400 117 - 1
ACGGAGAGGAUGUUGCCGAUGCUGCCCGUGCAGCAGAGUAUCGGAAUGUAGUACUGGUGCACAAAGUCCCCGAUGAAGAAGGCGAUGCGCAGCAUCUCCUCAUCAUCGCCG---GACAUG
.(((...((((.(((....((((((....))))))..(((((((.........))))))).))).)))).((((((.((.((.(((((...))))).)))).)))))))))---...... ( -42.60)
>DroYak_CAF1 14695 117 - 1
ACGGAGAGGAUGUUCCCAAUGCUGCCCGUGCAGCAAACCACUGGUAUAUAGUACUGGUGCACGAAAUCCCCUAUAAAGAAGGCUAUCCUUAGCAUCUCAUCAUCCUCGCCA---GCCGAA
.(((.((((((((((....((((((....))))))...(((..((((...))))..)))...)))............((..((((....))))...))..)))))))....---.))).. ( -36.80)
>DroMoj_CAF1 15893 117 - 1
ACGGAGAGUAUGUUGCCAAUGCUGCCCGUGCAGCAGAUGAUGGGCACGUAAUAUCUAUUCACAAUAUCGCCAAUGAGGUACGCGAUUCGCAGCAUUUCCUCAUCCUCGACG---GACAUA
..((((((.(((((((...((((((((((.((.....))))))))).)))...............(((((...........)))))..)))))))...))).)))......---...... ( -32.50)
>DroAna_CAF1 27682 120 - 1
ACGGAGAGGAUGUUGCCGAUGCUGCCGGUGCAGCACAGAAUGGGAAUAUAGUACUGAUGGACAACGUCCCCGAUGAAAAAGGCGAUGCGCAGCAUCUCCUCAUCCUCGCCGCUCGCCGAG
.(((.(((((((((((((.((((((....))))))(((.((.........)).))).))).)))))))).(((.((...(((.(((((...))))).)))..)).)))....)).))).. ( -41.50)
>DroPer_CAF1 13405 117 - 1
ACGGAGAGGAUGUUGCCGAUGCUGCCCGUGCAGCAGAGUAUCGGAAUGUAGUACUGGUGCACAAAGUCCCCGAUGAAGAAGGCGAUGCGCAGCAUCUCCUCAUCAUCGCCG---GACAUG
.(((...((((.(((....((((((....))))))..(((((((.........))))))).))).)))).((((((.((.((.(((((...))))).)))).)))))))))---...... ( -42.60)
>consensus
ACGGAGAGGAUGUUGCCAAUGCUGCCCGUGCAGCAGAGCAUCGGAAUAUAGUACUGAUGCACAAAGUCCCCGAUGAAGAAGGCGAUGCGCAGCAUCUCCUCAUCCUCGCCG___GACAAG
..((.(((((((.....((((((((..(((((.(((.................))).)))))...(((.((.........)).)))..))))))))....))))))).)).......... (-26.66 = -28.46 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:45 2006