Locus 9933

Sequence ID	3R_DroMel_CAF1
Location	26,583,118 – 26,583,209
Length	91
Max. P	0.942275

overview

Window 5

Location	26,583,118 – 26,583,209
Length	91
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	81.14
Mean single sequence MFE	-32.30
Consensus MFE	-19.63
Energy contribution	-20.49
Covariance contribution	0.86
Combinations/Pair	1.06
Mean z-score	-3.20
Structure conservation index	0.61
SVM decision value	1.32
SVM RNA-class probability	0.942275
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26583118 91 + 27905053
CGUAUUAUUUACACCUCCGGCAACAAGGACCCCGGAUCCGGG--------UCCGGGUCUAAGACCAUUA--------GUUCGUGCAA-CAACGGAGGCGUAGAAACAU
.......(((((.(((((((((....((((((.(....))))--------))).((((...))))....--------.....)))..-...)))))).)))))..... ( -33.50)
>DroSec_CAF1 167031 99 + 1
CGUAUUAUUUACACCUCCGGCAACAAGGACCCCGGAUCCGGGAUCCGGGAUCCGGGUCUAAGACCAUUA--------GUUCGUGCAA-CAACGGAGGCGUAGAAACAU
.......(((((.((((((.......((((((.((((((.(....).))))))))))))..........--------((....))..-...)))))).)))))..... ( -40.30)
>DroSim_CAF1 168958 85 + 1
CGUAUUAUUUACACCUCCGGCAACAAGGACCCCGGAU--------------CCGGGUCUAAGACCAUUA--------GUUCGUGCAA-CAACGGAGGCGUAGAAACAU
.......(((((.((((((.......((((((.(...--------------.)))))))..........--------((....))..-...)))))).)))))..... ( -26.40)
>DroEre_CAF1 181125 85 + 1
CGUAUUAUUUACACCUCCGGCAACAAGGAACCCG--------------GAUCCGGGACUAAGACCAUUA--------GUUCGUGCAA-CAACGGAGGCGUAGAAACAU
.......(((((.((((((......(.((.((((--------------....))))(((((.....)))--------)))).)....-...)))))).)))))..... ( -27.32)
>DroYak_CAF1 176271 101 + 1
CGUAUUAUUUACACCUCCGGCAACAAGGACCCCGGAUCC------CCGGAUCCGGGACUAAGACCAUUAGAGCAUUGGUUCGUGCAA-CAACGGAGGCGUAGAAACAU
.......(((((.(((((((((....((((((((((((.------...)))))))..((((.....))))......))))).)))..-...)))))).)))))..... ( -39.30)
>DroAna_CAF1 173915 79 + 1
CGUAUUAUUUACACCUCCGGCUACAGC---------------------GAUCCGGGUCUAAGACCAUUA--------CGGCGAACAGCCAACGGAGGCGUAAAAACAA
.......(((((.((((((((....))---------------------......((((...))))....--------.(((.....)))..)))))).)))))..... ( -27.00)
>consensus
CGUAUUAUUUACACCUCCGGCAACAAGGACCCCGGAU___________GAUCCGGGUCUAAGACCAUUA________GUUCGUGCAA_CAACGGAGGCGUAGAAACAU
.......(((((.((((((....)......(((((................)))))....................................))))).)))))..... (-19.63 = -20.49 +   0.86)

alignment

secondary structure

dotplot

Window 6

Location	26,583,118 – 26,583,209
Length	91
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	81.14
Mean single sequence MFE	-34.37
Consensus MFE	-23.02
Energy contribution	-23.74
Covariance contribution	0.72
Combinations/Pair	1.08
Mean z-score	-2.86
Structure conservation index	0.67
SVM decision value	1.21
SVM RNA-class probability	0.930957
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26583118 91 - 27905053
AUGUUUCUACGCCUCCGUUG-UUGCACGAAC--------UAAUGGUCUUAGACCCGGA--------CCCGGAUCCGGGGUCCUUGUUGCCGGAGGUGUAAAUAAUACG
.((((..((((((((((...-..((((((..--------....((((...)))).(((--------((((....).))))))))).)))))))))))))...)))).. ( -34.80)
>DroSec_CAF1 167031 99 - 1
AUGUUUCUACGCCUCCGUUG-UUGCACGAAC--------UAAUGGUCUUAGACCCGGAUCCCGGAUCCCGGAUCCGGGGUCCUUGUUGCCGGAGGUGUAAAUAAUACG
.((((..((((((((((...-..((((((..--------....((((...)))).((((((((((((...))))))))))))))).)))))))))))))...)))).. ( -45.50)
>DroSim_CAF1 168958 85 - 1
AUGUUUCUACGCCUCCGUUG-UUGCACGAAC--------UAAUGGUCUUAGACCCGG--------------AUCCGGGGUCCUUGUUGCCGGAGGUGUAAAUAAUACG
.((((..((((((((((...-..((((((.(--------(((.....)))).((((.--------------...))))....))).)))))))))))))...)))).. ( -28.60)
>DroEre_CAF1 181125 85 - 1
AUGUUUCUACGCCUCCGUUG-UUGCACGAAC--------UAAUGGUCUUAGUCCCGGAUC--------------CGGGUUCCUUGUUGCCGGAGGUGUAAAUAAUACG
.((((..((((((((((..(-(.(((.((((--------(...(((((.......)))))--------------..)))))..))).))))))))))))...)))).. ( -28.40)
>DroYak_CAF1 176271 101 - 1
AUGUUUCUACGCCUCCGUUG-UUGCACGAACCAAUGCUCUAAUGGUCUUAGUCCCGGAUCCGG------GGAUCCGGGGUCCUUGUUGCCGGAGGUGUAAAUAAUACG
.((((..(((((((((((((-..(((........)))..))))(((..((((((((((((...------.)))))))))...)))..))))))))))))...)))).. ( -39.90)
>DroAna_CAF1 173915 79 - 1
UUGUUUUUACGCCUCCGUUGGCUGUUCGCCG--------UAAUGGUCUUAGACCCGGAUC---------------------GCUGUAGCCGGAGGUGUAAAUAAUACG
.((((((((((((((((...((.((...(((--------....((((...)))))))...---------------------)).))...)))))))))))).)))).. ( -29.00)
>consensus
AUGUUUCUACGCCUCCGUUG_UUGCACGAAC________UAAUGGUCUUAGACCCGGAUC___________AUCCGGGGUCCUUGUUGCCGGAGGUGUAAAUAAUACG
.((((..(((((((((((.....))..................(((..(((.(((((................)))))....)))..))))))))))))...)))).. (-23.02 = -23.74 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:45:11 2006