Locus 3756

Sequence ID	X_DroMel_CAF1
Location	9,962,527 – 9,962,752
Length	225
Max. P	0.962540

overview

Window 9

Location	9,962,527 – 9,962,644
Length	117
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	83.53
Mean single sequence MFE	-23.63
Consensus MFE	-22.52
Energy contribution	-22.30
Covariance contribution	-0.22
Combinations/Pair	1.04
Mean z-score	-0.37
Structure conservation index	0.95
SVM decision value	0.28
SVM RNA-class probability	0.664934
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9962527 117 + 22224390
GCCUAUUCUUGUGCGCGCUGCUAAUUUACGAGGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGACUC---AGUCUUGGCUUUUAUUCCCCUCAUUCCCCUUUUUACC
(((.......((((.(((.((.((((.........)))).)).)))((((........))))...))))..(((((...)---))))..)))............................ ( -24.90)
>DroEre_CAF1 25162 98 + 1
GCCUAUUCUUGUGCGCGCUGCUAAUUUACGAGGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGACGC---GGUCUUGGCUUUCAUCCC-------------------
(((.......((((.(((.((.((((.........)))).)).)))((((........))))...))))..(((((...)---))))..))).........------------------- ( -24.20)
>DroYak_CAF1 25058 108 + 1
GUCUAUUC-UGUGCGCGCUGCUAAUUUACGAGGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGACUCAGUAGUCUUGGCUUUUAUCCC-----------CUUUUACC
........-.((((..(((.(........).)))((((((((....))))))))......)))).((.(..(((((......)))))..))).........-----------........ ( -21.80)
>consensus
GCCUAUUCUUGUGCGCGCUGCUAAUUUACGAGGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGACUC___AGUCUUGGCUUUUAUCCC____________UUUUACC
(((...((..((((.(((.((.((((.........)))).)).)))((((........))))...))))..))..(((......)))..)))............................ (-22.52 = -22.30 +  -0.22)

alignment

secondary structure

dotplot

Window 0

Location	9,962,644 – 9,962,752
Length	108
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	82.91
Mean single sequence MFE	-41.80
Consensus MFE	-25.32
Energy contribution	-27.77
Covariance contribution	2.45
Combinations/Pair	1.08
Mean z-score	-3.55
Structure conservation index	0.61
SVM decision value	1.54
SVM RNA-class probability	0.962540
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9962644 108 - 22224390
UUUGAGCUGCCGCU------------UUUUCUUUAUUGUUUUUGUUCUUUUCUGUUGCUGUCUCAUGUGGCAGAGAGACGUGACAGGAAAUGGCCAACAAAACAAAUGGUGGCAUUGGGU
.......(((((((------------.(((.(((..((((...((..((((((((..(.(((((..........))))))..))))))))..)).))))))).))).)))))))...... ( -32.60)
>DroEre_CAF1 25260 114 - 1
UUUGAGCUGCUGCCUCGCUUGCCCCUCUUUCUUGAUUGUUUUUGCUCUUUUCUGUUGCUGUCUCAUGUGGCAGA--GACGUGACAGGAAAUGGCCAACACAACAAAAGGGGGCAAG----
...((((....).))).((((((((.((((..((.((((.((.(((.((((((((..(.(((((........))--))))..)))))))).))).)).))))))))))))))))))---- ( -46.50)
>DroYak_CAF1 25166 117 - 1
UUUGAGCUGCUGCUUUAGUUGCCCCCUUUUCUUGAUUGUUUUUGUUCUUUUCUGUUGCUGUCUCAUGUGGCAGA--GACGUGACAGGAAAUGGCCAACAAAACAAAAGGGGGCAAG-GGG
...((((....))))...((((((((((((.((..(((((...((..((((((((..(.(((((........))--))))..))))))))..)).))))))).)))))))))))).-... ( -46.30)
>consensus
UUUGAGCUGCUGCUU___UUGCCCC_UUUUCUUGAUUGUUUUUGUUCUUUUCUGUUGCUGUCUCAUGUGGCAGA__GACGUGACAGGAAAUGGCCAACAAAACAAAAGGGGGCAAG_GG_
.....((....)).....((((((((.(((.(((..((((...((..((((((((..(.(((((........))..))))..))))))))..)).))))))).))).))))))))..... (-25.32 = -27.77 +   2.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:38 2006