Locus 5486

Sequence ID	2L_DroMel_CAF1
Location	15,666,388 – 15,666,548
Length	160
Max. P	0.667319

overview

Window 5

Location	15,666,388 – 15,666,508
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	71.11
Mean single sequence MFE	-41.33
Consensus MFE	-20.37
Energy contribution	-21.50
Covariance contribution	1.13
Combinations/Pair	1.31
Mean z-score	-2.04
Structure conservation index	0.49
SVM decision value	0.25
SVM RNA-class probability	0.653795
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15666388 120 - 22407834
UGAGCACAAUGUCUGGGGUAAUUAAAGAGCCACCACCCACUAAGCUGCGAUUGUGGAUCACGGCAAUGGUCCACGGAAACUCGGCUGGUUUUGCUUGCCCUUCGGUAACAUUAAAUUGCA
...(((.((((((((((((((....(((((((((..................((((((((......))))))))(....)..)).)))))))..))))))..)))..)))))....))). ( -36.30)
>DroPse_CAF1 25686 120 - 1
UGAGGACGGCAUUCUGGCUAACCAGAGAGCCACCGCCGAAGAAUUGACCUUUAUGGAACAGAGCAAUCGUCCAGGGGAAUUCUCCAAACUUCGCCUGAUCCUCAGAUGCAUUGGCGUUCG
...(((((((.((((((....)))))).)))...(((((((............((((...((....)).))))((((....))))...))))(((((.....)))..))...))))))). ( -43.30)
>DroPer_CAF1 23381 120 - 1
UGAGGACGGCAUUCUGGCUAACCAGAGAGCCACCGCCGAAGUAUUGACCUUUAUGGAACAGAGCAAUCGUCCAGGGGAAUUCUCCAAACUUCGCCUGAUCCUCAGAUGCAUUGGCGUUCG
...(((((((.((((((....)))))).)))...((((((((...........((((...((....)).))))((((....))))..)))))(((((.....)))..))...))))))). ( -44.40)
>consensus
UGAGGACGGCAUUCUGGCUAACCAGAGAGCCACCGCCGAAGAAUUGACCUUUAUGGAACAGAGCAAUCGUCCAGGGGAAUUCUCCAAACUUCGCCUGAUCCUCAGAUGCAUUGGCGUUCG
...(((((((.((((((....)))))).)))...(((((((((((..((....((((...((....)).))))))..))))))...........(((.....))).....))))))))). (-20.37 = -21.50 +   1.13)

alignment

secondary structure

dotplot

Window 6

Location	15,666,428 – 15,666,548
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	71.67
Mean single sequence MFE	-42.02
Consensus MFE	-21.96
Energy contribution	-22.20
Covariance contribution	0.24
Combinations/Pair	1.30
Mean z-score	-1.87
Structure conservation index	0.52
SVM decision value	0.28
SVM RNA-class probability	0.667319
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15666428 120 - 22407834
AUAUCCUCCACGUCUUUAUUGAAUAUCCGAUGGGCAGCUGUGAGCACAAUGUCUGGGGUAAUUAAAGAGCCACCACCCACUAAGCUGCGAUUGUGGAUCACGGCAAUGGUCCACGGAAAC
.........................((((.(((((.(((((((.((((((((((.((((...............))))....))..)).))))))..)))))))....)))))))))... ( -34.66)
>DroPse_CAF1 25726 120 - 1
AUAUCGGCUUCUGACUUAUCCGCCAGGAGGUGGGCUGCCAUGAGGACGGCAUUCUGGCUAACCAGAGAGCCACCGCCGAAGAAUUGACCUUUAUGGAACAGAGCAAUCGUCCAGGGGAAU
...((((((((((.(......).)))))(((((((((((....)).)))).((((((....))))))..))))))))))........(((...((((...((....)).)))).)))... ( -45.70)
>DroPer_CAF1 23421 120 - 1
AUAUCGGCUUCUGACUUAUCCGCCAGGAGGUGGGCUGCCAUGAGGACGGCAUUCUGGCUAACCAGAGAGCCACCGCCGAAGUAUUGACCUUUAUGGAACAGAGCAAUCGUCCAGGGGAAU
...((((((((((.(......).)))))(((((((((((....)).)))).((((((....))))))..))))))))))........(((...((((...((....)).)))).)))... ( -45.70)
>consensus
AUAUCGGCUUCUGACUUAUCCGCCAGGAGGUGGGCUGCCAUGAGGACGGCAUUCUGGCUAACCAGAGAGCCACCGCCGAAGAAUUGACCUUUAUGGAACAGAGCAAUCGUCCAGGGGAAU
...(((((..........(((....)))(((((...(((........))).((((((....))))))..))))))))))........((....((((...((....)).))))))..... (-21.96 = -22.20 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:19 2006