Locus 8233

Sequence ID	X_DroMel_CAF1
Location	20,445,598 – 20,445,704
Length	106
Max. P	0.714913

overview

Window 3

Location	20,445,598 – 20,445,704
Length	106
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.81
Mean single sequence MFE	-34.72
Consensus MFE	-19.83
Energy contribution	-21.36
Covariance contribution	1.53
Combinations/Pair	1.09
Mean z-score	-2.44
Structure conservation index	0.57
SVM decision value	0.38
SVM RNA-class probability	0.714913
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20445598 106 + 22224390
UAGUACAUUAAUCAGUUGGAUAAAUUCGCCGGCUUGAGGCGUGCC--------------UCGGAAAAGCCUCGGGAAAGUGCCGCAGGAAAAGCCAAAGCCGGGAAAACUCACCAACAAC
..............(((((.....(((.(((((((((((....))--------------))((.....((((((.......))).))).....)).))))))))))......)))))... ( -37.20)
>DroSec_CAF1 18951 106 + 1
UAGUGCAUUAAUCAGUUGGAUAAAUUCGCCGGCUUGAGGCGUGCC--------------UCGGAAAAGCCUCGGGAAAGUGCCGCAGGAAAAGCCAAAGCCGGGAAAACUCACCAACAAC
..............(((((.....(((.(((((((((((....))--------------))((.....((((((.......))).))).....)).))))))))))......)))))... ( -37.20)
>DroSim_CAF1 23662 106 + 1
UAGUGCAUUAAUCAGUUGGAUAAAUUCGCCGGCUUGAGGCGUGCC--------------UCGGAAAAGCCUCGGGAAAGUGCCGCAGGAAAAGCCAAAGCCGGGAAAACUCACCAACAAC
..............(((((.....(((.(((((((((((....))--------------))((.....((((((.......))).))).....)).))))))))))......)))))... ( -37.20)
>DroEre_CAF1 16938 106 + 1
UAGUGCAUUAAUCAGUUGGAUAAACUCGCCGGCUUGAGGCGUGCC--------------UCGGAAAAGCCUCGGGAAAGUGCCGCAGGAAGAGCCAAAGCCGGGAAAACCCACCAGCAAC
..............(((((......((.(((((((((((....))--------------))((.....((((((.......))).))).....)).))))))))).......)))))... ( -36.12)
>DroYak_CAF1 17230 106 + 1
UAGUGCAUUAAUCAGUUGGAUAAACUCGCCGGCUUGAGGCGUGCC--------------UCGGAAAAGCCUCGGGAAAGCGCUGCUGGGAAAGCCAAAGCCGGGAAAAGCCACCAACAAC
..............(((((......((.(((((((..(((...((--------------.(((...(((((......)).))).)))))...))).))))))))).......)))))... ( -35.82)
>DroPer_CAF1 35698 106 + 1
UAUUGCAUUAAUCAGAUGGAUAAACUUUCCUGGCUGUAGCGAAAGUUUACAGUUUGAGGCGGGAAAAACCUCGGG-------------AAAAGCCAAAACCAGCAAACCGAACCAACAA-
..((((.....((((((...((((((((((((....))).)))))))))..))))))((((((......))))((-------------.....))....)).)))).............- ( -24.80)
>consensus
UAGUGCAUUAAUCAGUUGGAUAAACUCGCCGGCUUGAGGCGUGCC______________UCGGAAAAGCCUCGGGAAAGUGCCGCAGGAAAAGCCAAAGCCGGGAAAACUCACCAACAAC
..............(((((.........((((((((((((...((................))....))))).((......((...)).....)).))))))).........)))))... (-19.83 = -21.36 +   1.53)

alignment

secondary structure

dotplot

Window 4

Location	20,445,598 – 20,445,704
Length	106
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.81
Mean single sequence MFE	-32.95
Consensus MFE	-22.25
Energy contribution	-23.11
Covariance contribution	0.87
Combinations/Pair	1.30
Mean z-score	-1.46
Structure conservation index	0.68
SVM decision value	0.02
SVM RNA-class probability	0.543115
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20445598 106 - 22224390
GUUGUUGGUGAGUUUUCCCGGCUUUGGCUUUUCCUGCGGCACUUUCCCGAGGCUUUUCCGA--------------GGCACGCCUCAAGCCGGCGAAUUUAUCCAACUGAUUAAUGUACUA
...((((((((((((..(((((((.((.....(((.(((.......)))))).....))((--------------((....))))))))))).))))))).))))).............. ( -36.20)
>DroSec_CAF1 18951 106 - 1
GUUGUUGGUGAGUUUUCCCGGCUUUGGCUUUUCCUGCGGCACUUUCCCGAGGCUUUUCCGA--------------GGCACGCCUCAAGCCGGCGAAUUUAUCCAACUGAUUAAUGCACUA
...((((((((((((..(((((((.((.....(((.(((.......)))))).....))((--------------((....))))))))))).))))))).))))).............. ( -36.20)
>DroSim_CAF1 23662 106 - 1
GUUGUUGGUGAGUUUUCCCGGCUUUGGCUUUUCCUGCGGCACUUUCCCGAGGCUUUUCCGA--------------GGCACGCCUCAAGCCGGCGAAUUUAUCCAACUGAUUAAUGCACUA
...((((((((((((..(((((((.((.....(((.(((.......)))))).....))((--------------((....))))))))))).))))))).))))).............. ( -36.20)
>DroEre_CAF1 16938 106 - 1
GUUGCUGGUGGGUUUUCCCGGCUUUGGCUCUUCCUGCGGCACUUUCCCGAGGCUUUUCCGA--------------GGCACGCCUCAAGCCGGCGAGUUUAUCCAACUGAUUAAUGCACUA
..(((...(((((.((((((((((.((.....(((.(((.......)))))).....))((--------------((....))))))))))).)))...)))))..........)))... ( -33.42)
>DroYak_CAF1 17230 106 - 1
GUUGUUGGUGGCUUUUCCCGGCUUUGGCUUUCCCAGCAGCGCUUUCCCGAGGCUUUUCCGA--------------GGCACGCCUCAAGCCGGCGAGUUUAUCCAACUGAUUAAUGCACUA
...(((((.(((((...(((((((.((((((...(((...))).....)))))).....((--------------((....))))))))))).)))))...))))).............. ( -32.40)
>DroPer_CAF1 35698 106 - 1
-UUGUUGGUUCGGUUUGCUGGUUUUGGCUUUU-------------CCCGAGGUUUUUCCCGCCUCAAACUGUAAACUUUCGCUACAGCCAGGAAAGUUUAUCCAUCUGAUUAAUGCAAUA
-((((....((((.....(((....(((((((-------------(..(((((.......)))))...(((((.........)))))...))))))))...))).)))).....)))).. ( -23.30)
>consensus
GUUGUUGGUGAGUUUUCCCGGCUUUGGCUUUUCCUGCGGCACUUUCCCGAGGCUUUUCCGA______________GGCACGCCUCAAGCCGGCGAAUUUAUCCAACUGAUUAAUGCACUA
...((((((((((((..(((((((..(((........)))........(((((...........................)))))))))))).))))))).))))).............. (-22.25 = -23.11 +   0.87)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:58 2006