Locus 26

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

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

secondary structure

dotplot

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

secondary structure

dotplot

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