Locus 26

Sequence ID 2L_DroMel_CAF1
Location 92,598 – 92,713
Length 115
Max. P 0.870837
window38 window39

overview

Window 8

Location 92,598 – 92,713
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.26
Mean single sequence MFE -24.08
Consensus MFE -15.26
Energy contribution -14.82
Covariance contribution -0.44
Combinations/Pair 1.22
Mean z-score -1.70
Structure conservation index 0.63
SVM decision value 0.51
SVM RNA-class probability 0.765449
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 92598 115 + 22407834
AC---UGUCUGGAUCGCUA-AAAAUAAUCAAUAACUACACACCUCAAAAGGUGCUAGACAGUUAAU-UUAUACGGUUUCAUUCGUAUAUGUAUACUAAAAAUAGUACAAAGCGUUGAAUA
((---(((((((.......-....((.....))......(((((....))))))))))))))....-.(((((((......)))))))....(((((....))))).............. ( -22.00)
>DroPse_CAF1 86597 114 + 1
CC---CGUCUGGCACGCGGCAAAGUAAUCAAAA-AUGAACACCUCGAAAGGUGCCAGACAGUUA-U-UAAUAUGGUUUUAUUCAUAUGAGUAUAAUAAAAAUAGCACAAAUCUGCAGAUA
..---.(((((((((((......))........-..........(....)))))))))).((((-(-..((((((......))))))....))))).......(((......)))..... ( -27.30)
>DroEre_CAF1 72393 115 + 1
AC---UGUCUGGAUCGCUA-AAAAUAAUCAAAAACUCCACACCUCGAAAGGUGCUAGACAGUUAAU-UUAUACGGUUUUAUUCGUAUAUGUAUACUAAAAAUAGUACAAAGCGUUGAAUA
((---(((((((.......-...................(((((....))))))))))))))....-.(((((((......)))))))....(((((....))))).............. ( -21.86)
>DroYak_CAF1 65285 118 + 1
ACAUUUGUCUGGAUCGCCA-AAAAUAAUCAAUAACUCCACACCUCGAAAGGUGCUAGACAGUUAAU-UUAUACGGUUUCAUUCGUAUAUGUAUACUAAAAAUAGUACAAAGCGUUGAAUA
.........(((....)))-.......(((((............(....)((((((...(((....-.(((((((......))))))).....))).....)))))).....)))))... ( -20.30)
>DroAna_CAF1 75856 112 + 1
AC---CGUCUGGCGAUCUGGAGAACAAUCAGG-CCCCAACACCUCGAAAGGUGCUAGACAGUUAAUUUUAUAUGG----AUUCGUAUGCGCAUACUAAAAAUAGUAUAAUGCUCCAGCUA
..---.((((((((..((((.......)))).-.).....((((....))))))))))).............(((----(...((((....((((((....)))))).)))))))).... ( -25.70)
>DroPer_CAF1 87450 114 + 1
CC---CGUCUGGCACGCGGCAAAGUAAUCAAAA-AUGAACACCUCGAAAGGUGCCAGACAGUUA-U-UAAUAUGGUUUUAUUCAUAUGAGUAUAAUAAAAAUAGCACAAAUCUGCAGAUA
..---.(((((((((((......))........-..........(....)))))))))).((((-(-..((((((......))))))....))))).......(((......)))..... ( -27.30)
>consensus
AC___CGUCUGGAUCGCUA_AAAAUAAUCAAAAACUCAACACCUCGAAAGGUGCUAGACAGUUAAU_UUAUACGGUUUUAUUCGUAUAUGUAUACUAAAAAUAGUACAAAGCGUCAAAUA
......((((((...........................(((((....))))))))))).........(((((((......)))))))................................ (-15.26 = -14.82 +  -0.44) 

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 92,598 – 92,713
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.26
Mean single sequence MFE -29.80
Consensus MFE -14.47
Energy contribution -13.88
Covariance contribution -0.58
Combinations/Pair 1.21
Mean z-score -2.58
Structure conservation index 0.49
SVM decision value 0.87
SVM RNA-class probability 0.870837
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 92598 115 - 22407834
UAUUCAACGCUUUGUACUAUUUUUAGUAUACAUAUACGAAUGAAACCGUAUAA-AUUAACUGUCUAGCACCUUUUGAGGUGUGUAGUUAUUGAUUAUUUU-UAGCGAUCCAGACA---GU
............(((((((....)))))))..((((((........)))))).-....(((((((.((((((....))))))...((((...........-)))).....)))))---)) ( -27.00)
>DroPse_CAF1 86597 114 - 1
UAUCUGCAGAUUUGUGCUAUUUUUAUUAUACUCAUAUGAAUAAAACCAUAUUA-A-UAACUGUCUGGCACCUUUCGAGGUGUUCAU-UUUUGAUUACUUUGCCGCGUGCCAGACG---GG
.....(((......))).....((((((.....(((((........)))))))-)-)))(((((((((((....(((((((.(((.-...))).)))))))....))))))))))---). ( -33.40)
>DroEre_CAF1 72393 115 - 1
UAUUCAACGCUUUGUACUAUUUUUAGUAUACAUAUACGAAUAAAACCGUAUAA-AUUAACUGUCUAGCACCUUUCGAGGUGUGGAGUUUUUGAUUAUUUU-UAGCGAUCCAGACA---GU
............(((((((....)))))))..((((((........)))))).-....(((((((.((((((....))))))(((....((((......)-)))...))))))))---)) ( -29.20)
>DroYak_CAF1 65285 118 - 1
UAUUCAACGCUUUGUACUAUUUUUAGUAUACAUAUACGAAUGAAACCGUAUAA-AUUAACUGUCUAGCACCUUUCGAGGUGUGGAGUUAUUGAUUAUUUU-UGGCGAUCCAGACAAAUGU
............(((((((....)))))))..((((((........)))))).-......(((((.((((((....))))))(((.(..(..(......)-..)..)))))))))..... ( -26.10)
>DroAna_CAF1 75856 112 - 1
UAGCUGGAGCAUUAUACUAUUUUUAGUAUGCGCAUACGAAU----CCAUAUAAAAUUAACUGUCUAGCACCUUUCGAGGUGUUGGGG-CCUGAUUGUUCUCCAGAUCGCCAGACG---GU
....((((....(((((((....)))))))((....))..)----)))..........((((((((((((((....)))))))..((-(..((((........))))))))))))---)) ( -29.70)
>DroPer_CAF1 87450 114 - 1
UAUCUGCAGAUUUGUGCUAUUUUUAUUAUACUCAUAUGAAUAAAACCAUAUUA-A-UAACUGUCUGGCACCUUUCGAGGUGUUCAU-UUUUGAUUACUUUGCCGCGUGCCAGACG---GG
.....(((......))).....((((((.....(((((........)))))))-)-)))(((((((((((....(((((((.(((.-...))).)))))))....))))))))))---). ( -33.40)
>consensus
UAUCCAAAGCUUUGUACUAUUUUUAGUAUACACAUACGAAUAAAACCAUAUAA_AUUAACUGUCUAGCACCUUUCGAGGUGUGGAGUUUUUGAUUAUUUU_CAGCGAGCCAGACA___GU
............(((((((....)))))))...(((((........))))).........(((((.((((((....)))))).....................(.....))))))..... (-14.47 = -13.88 +  -0.58) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:23:34 2006