Locus 5866

Sequence ID	2R_DroMel_CAF1
Location	18,542,646 – 18,542,791
Length	145
Max. P	0.846852

overview

Window 8

Location	18,542,646 – 18,542,761
Length	115
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.79
Mean single sequence MFE	-33.08
Consensus MFE	-23.12
Energy contribution	-23.45
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.37
Structure conservation index	0.70
SVM decision value	0.55
SVM RNA-class probability	0.779264
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18542646 115 + 20766785
UCGCAGU--GCAUAUUUC---AAUGUUGUUGGAGGCGACGCUGGCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUCG
...((((--(....((((---(((...)))))))....)))))((.((((((((((((.........))))))))))))))((....)).((((((....)))))).............. ( -30.80)
>DroPse_CAF1 25343 116 + 1
-UGUAGUCGGCGUUGUAC---CUCGUAGUUGGAGGCGACGCUCUCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGCAAACCACAGUUUACAUUCACUCAAUUCG
-(((((.((((((((..(---(((.......)))))))))))....((((((((((((.........))))))))))))((((....).)))........).)))))............. ( -34.30)
>DroGri_CAF1 24370 111 + 1
------UGGGAGCUGCAG---UUUGAAGUUGGAGGCGACGCUGCCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUUG
------(((((((.((((---(.....((((....)))))))))..((((((((((((.........)))))))))))))))(....)..((((((....)))))).....))))..... ( -32.20)
>DroWil_CAF1 32661 114 + 1
UUGUAGU--G----UCUCGGAAUUGUAGUUGGAGGCGAUGCUGGCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGAUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUCG
.......--.----.....((((((.(((.((((((.......)))((((((((((((.........))))))))))))..((....)).((((((....)))))).)))))))))))). ( -33.10)
>DroMoj_CAF1 29516 108 + 1
------UGGGA-CCUGGG-----AGCAGUUGCAGGCGACGCUGCCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUUG
------((((.-...(((-----(((.((((....))))))).)))((((((((((((.........))))))))))))..((....)).((((((....)))))).....))))..... ( -35.20)
>DroAna_CAF1 20710 103 + 1
--------------UCUC---AGUGCUGGCAGAGGCGACGCUGCCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUCG
--------------((.(---(((...(((((.(....).))))).((((((((((((.........)))))))))))))))))).....((((((....)))))).............. ( -32.90)
>consensus
______U__G____UCUC___AUUGUAGUUGGAGGCGACGCUGCCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUCG
...............................(((..((.......(((((((((((((.........))))))))))))).((....)).((((((....))))))..)).)))...... (-23.12 = -23.45 +   0.33)

alignment

secondary structure

dotplot

Window 9

Location	18,542,681 – 18,542,791
Length	110
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.95
Mean single sequence MFE	-35.95
Consensus MFE	-21.00
Energy contribution	-21.50
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.89
Structure conservation index	0.58
SVM decision value	0.77
SVM RNA-class probability	0.846852
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18542681 110 + 20766785
CUGGCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUCGGUUC--CGGCGAG----GG----UGGCGGGCUACGGCGGC
...(((((((((((((((.........))))))))))))((((....)).((((((....))))))...(((((...(((....--)))...)----))----))))..((....))))) ( -37.20)
>DroVir_CAF1 26238 104 + 1
CUGCCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUUGGUGC---GACAAG------------GCAGGC-GAGGAGCA
(((((.((((((((((((.........))))))))))))((((....)).((((((....))))))................))---.....)------------))))((-.....)). ( -32.60)
>DroPse_CAF1 25379 114 + 1
CUCUCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGCAAACCACAGUUUACAUUCACUCAAUUCGGUGC--UGGAGAAAGACGG----CGACCGGGUGACUCGGA
...(((((((((((((((.........))))))))))))((((....).)))................(((((.....((((((--((........)))----).)))))))))...))) ( -35.50)
>DroWil_CAF1 32695 118 + 1
CUGGCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGAUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUCGGUUGGAUGGCCAG--AGGAGGAGCAGCUGAAUGGUGUGGA
.....(((((((((((((.........))))))))))))).((....)).((((((....)))))).(((((.(.(((((((((.....((..--....))..))))))))).).))))) ( -38.30)
>DroMoj_CAF1 29544 105 + 1
CUGCCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUUGGUGC---GACAAG------------GCAGGCAGCGGGGCA
..((((((((((((((((.........))))))))))))((((.......((((((....))))))...............(((---......------------)))..)))).)))). ( -35.50)
>DroPer_CAF1 24371 114 + 1
CUCUCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUCGGUGC--UGGAGAAAGACGG----CGACCGGGUGACUCGGA
...(((((((((((((((.........))))))))))))..((....)).((((((....))))))..(((((.....((((((--((........)))----).)))))))))...))) ( -36.60)
>consensus
CUGCCCGUUGUUAUAGUGCAGAAAAAUUACUAUGACAACGCUGGAAACAAGUAAACCACAGUUUACAUUCACUCAAUUCGGUGC__UGGCGAG____GG____CGGCAGGCUGAGGCGGA
.....(((((((((((((.........))))))))))))).((....)).((((((....))))))...((((......))))..................................... (-21.00 = -21.50 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:47 2006