Locus 3274

Sequence ID	X_DroMel_CAF1
Location	8,700,749 – 8,700,841
Length	92
Max. P	0.743068

overview

Window 6

Location	8,700,749 – 8,700,841
Length	92
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	91.77
Mean single sequence MFE	-29.74
Consensus MFE	-24.66
Energy contribution	-24.82
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-1.35
Structure conservation index	0.83
SVM decision value	0.15
SVM RNA-class probability	0.607630
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8700749 92 + 22224390
-------GGUAUGGCUGGCCAAAACUCGAAGACGUUCGAAAUUUGAACCGUGGGCGAGGCAAACGGUUCGUGACCGUUACCAAUAGUUGGGGCCAACGU
-------...(((..(((((..((((....((((.(((.....((((((((..((...))..))))))))))).))))......))))..))))).))) ( -29.60)
>DroSec_CAF1 136149 90 + 1
-------GGUAUG-CUGGCCAAAACUCGAAGACAUUCGAAAUUUGAACCGUGGGCGAGGCAAACGGUUCGUGACCGUUACCAAUAGUUGGGGCU-ACGU
-------...(((-.(((((..((((((((....))))).....(((((((..((...))..)))))))................)))..))))-)))) ( -27.40)
>DroSim_CAF1 101080 90 + 1
-------GGUAUG-CUGGCCAAAACUCGAAGACAUUCGAAAUUUGAACCGUGGGCGAGGCAAACGGUUCGUGACCGUUACCAAUAGUUGGGGCU-ACGU
-------...(((-.(((((..((((((((....))))).....(((((((..((...))..)))))))................)))..))))-)))) ( -27.40)
>DroEre_CAF1 150622 90 + 1
-------GGCUUG-CUGGCCAAAACUUGGAGACGUUCGAAAUUUGAACCGUGGGCGAGGCAAACGGUUCGUGACCGUUACCAAUAGUUUGGGCC-ACGU
-------.....(-((((((.((((((((.((((.(((.....((((((((..((...))..))))))))))).)))).)))..))))).))))-).)) ( -34.20)
>DroYak_CAF1 142649 97 + 1
UAUAUAUGGUAUG-CUGGCCAAAACUUGCAGACGCUCGAAAUUUGAACCGUGGGCGAGGCAAACGGUUCGUGACCGUUACCAAUAGUUGGGGCC-ACGU
..........(((-.(((((..((((((..((((.(((.....((((((((..((...))..))))))))))).))))..))..))))..))))-)))) ( -30.10)
>consensus
_______GGUAUG_CUGGCCAAAACUCGAAGACGUUCGAAAUUUGAACCGUGGGCGAGGCAAACGGUUCGUGACCGUUACCAAUAGUUGGGGCC_ACGU
................((((..((((....((((.(((.....((((((((..((...))..))))))))))).))))......))))..))))..... (-24.66 = -24.82 +   0.16)

alignment

secondary structure

dotplot

Window 7

Location	8,700,749 – 8,700,841
Length	92
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	91.77
Mean single sequence MFE	-26.86
Consensus MFE	-20.42
Energy contribution	-20.42
Covariance contribution	-0.00
Combinations/Pair	1.10
Mean z-score	-1.86
Structure conservation index	0.76
SVM decision value	0.45
SVM RNA-class probability	0.743068
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8700749 92 - 22224390
ACGUUGGCCCCAACUAUUGGUAACGGUCACGAACCGUUUGCCUCGCCCACGGUUCAAAUUUCGAACGUCUUCGAGUUUUGGCCAGCCAUACC-------
..((((....))))...((((...(((((.(((((((..((...))..)))))))....((((((....))))))...))))).))))....------- ( -28.40)
>DroSec_CAF1 136149 90 - 1
ACGU-AGCCCCAACUAUUGGUAACGGUCACGAACCGUUUGCCUCGCCCACGGUUCAAAUUUCGAAUGUCUUCGAGUUUUGGCCAG-CAUACC-------
..((-(((.(((.....)))....(((((.(((((((..((...))..)))))))....((((((....))))))...))))).)-).))).------- ( -25.40)
>DroSim_CAF1 101080 90 - 1
ACGU-AGCCCCAACUAUUGGUAACGGUCACGAACCGUUUGCCUCGCCCACGGUUCAAAUUUCGAAUGUCUUCGAGUUUUGGCCAG-CAUACC-------
..((-(((.(((.....)))....(((((.(((((((..((...))..)))))))....((((((....))))))...))))).)-).))).------- ( -25.40)
>DroEre_CAF1 150622 90 - 1
ACGU-GGCCCAAACUAUUGGUAACGGUCACGAACCGUUUGCCUCGCCCACGGUUCAAAUUUCGAACGUCUCCAAGUUUUGGCCAG-CAAGCC-------
...(-((((.(((((..(((..(((.((..(((((((..((...))..))))))).......)).)))..)))))))).))))).-......------- ( -28.50)
>DroYak_CAF1 142649 97 - 1
ACGU-GGCCCCAACUAUUGGUAACGGUCACGAACCGUUUGCCUCGCCCACGGUUCAAAUUUCGAGCGUCUGCAAGUUUUGGCCAG-CAUACCAUAUAUA
...(-((((..((((...(((((((((.....)))).)))))..((..(((.(((.......))))))..)).))))..))))).-............. ( -26.60)
>consensus
ACGU_GGCCCCAACUAUUGGUAACGGUCACGAACCGUUUGCCUCGCCCACGGUUCAAAUUUCGAACGUCUUCGAGUUUUGGCCAG_CAUACC_______
.....((((..((((...(((((((((.....)))).))))).........((((.......)))).......))))..))))................ (-20.42 = -20.42 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:23 2006