Locus 6906

Sequence ID	X_DroMel_CAF1
Location	17,286,477 – 17,286,634
Length	157
Max. P	0.526555

overview

Window 3

Location	17,286,477 – 17,286,596
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	94.10
Mean single sequence MFE	-39.31
Consensus MFE	-34.02
Energy contribution	-34.69
Covariance contribution	0.67
Combinations/Pair	1.06
Mean z-score	-1.84
Structure conservation index	0.87
SVM decision value	-0.01
SVM RNA-class probability	0.526555
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17286477 119 - 22224390
AGUCGCUGCCGUCGACGUCGACGUCCAC-UUAUUCGGGCGGCGGUUUCCAUUUCAUUUUUAAGCUAACGCUCGUCGCGUUCAGCGUUUUAAUAUUUAAUUGUCGUCGAUCGCGAGCGGUU
..(((((((.(((((((.((((((((..-......)))))......................((((((((.....))))).)))..............))).))))))).)).))))).. ( -39.60)
>DroSim_CAF1 5404 117 - 1
UG---CCGUCGUCGACGUCGACGUCGACGUUCUUCGGGCGGCGGUUUCCAUUUCAUUUUUAAGCUAACGCUCGUCGCGUUCAGCGUUUUAAUAUUUAAUUGUCGUCGAUCGCGAGCGGUU
.(---((((((((((((....)))))))).....((((((..(((((.............)))))..))))))(((((.((.(((...((((.....)))).))).)).)))))))))). ( -42.72)
>DroYak_CAF1 6721 116 - 1
UG---CCGACGCCGACGUCGACGUCGAC-UUCUUCGGGCGGCGGUUUCCAUUUCAUUUUUAAGCUAACGCUCGUCGCGUUCAGCGUUUUAAUAUUUAAUUGUCGUCGAUCGCGAGCGGUU
..---....(((((.((((((((.(((.-.....((((((..(((((.............)))))..)))))).(((.....))).............))).)))))).)))).)))... ( -35.62)
>consensus
UG___CCGACGUCGACGUCGACGUCGAC_UUCUUCGGGCGGCGGUUUCCAUUUCAUUUUUAAGCUAACGCUCGUCGCGUUCAGCGUUUUAAUAUUUAAUUGUCGUCGAUCGCGAGCGGUU
.....((((.(((((((....)))))))......((((((..(((((.............)))))..))))))(((((.((.(((...((((.....)))).))).)).))))))))).. (-34.02 = -34.69 +   0.67)

alignment

secondary structure

dotplot

Window 4

Location	17,286,517 – 17,286,634
Length	117
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	91.24
Mean single sequence MFE	-43.50
Consensus MFE	-36.52
Energy contribution	-36.63
Covariance contribution	0.11
Combinations/Pair	1.04
Mean z-score	-1.82
Structure conservation index	0.84
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17286517 117 + 22224390
AACGCGACGAGCGUUAGCUUAAAAAUGAAAUGGAAACCGCCGCCCGAAUAA-GUGGACGUCGACGUCGACGGCAGCGACUGCGACGGCGAGCGCGGCAGAGGCCAAAAUGUUGCUGCU--
...((((((.(((((................(....)(((((..((....(-((.(.(((((....)))))....).))).)).))))))))))(((....)))....))))))....-- ( -41.00)
>DroSim_CAF1 5444 115 + 1
AACGCGACGAGCGUUAGCUUAAAAAUGAAAUGGAAACCGCCGCCCGAAGAACGUCGACGUCGACGUCGACGACGG---CAGCGACUGCGAGCGCGGCAGAGGCCAAAAUGUUGCUGCU--
...((((((.(((((.((.............(....)(((.(((.......((((((((....))))))))..))---).)))...)).)))))(((....)))....))))))....-- ( -43.30)
>DroYak_CAF1 6761 116 + 1
AACGCGACGAGCGUUAGCUUAAAAAUGAAAUGGAAACCGCCGCCCGAAGAA-GUCGACGUCGACGUCGGCGUCGG---CAGCGACUGCGAGCGCGGCUGAGGCCAAAAUGUUGCUGCGGA
...(((((((((....))))..........(((...(.((((((((....(-((((..(((((((....))))))---)..))))).)).).))))).)...)))....)))))...... ( -46.20)
>consensus
AACGCGACGAGCGUUAGCUUAAAAAUGAAAUGGAAACCGCCGCCCGAAGAA_GUCGACGUCGACGUCGACGACGG___CAGCGACUGCGAGCGCGGCAGAGGCCAAAAUGUUGCUGCU__
...(((((((((....))))..........(((...(.(((((.........(((((((....)))))))..........((........))))))).)...)))....)))))...... (-36.52 = -36.63 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:37 2006