Locus 3928

Sequence ID	2L_DroMel_CAF1
Location	11,467,439 – 11,467,537
Length	98
Max. P	0.920506

overview

Window 4

Location	11,467,439 – 11,467,537
Length	98
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	81.50
Mean single sequence MFE	-31.78
Consensus MFE	-19.23
Energy contribution	-20.03
Covariance contribution	0.81
Combinations/Pair	1.09
Mean z-score	-2.50
Structure conservation index	0.60
SVM decision value	0.68
SVM RNA-class probability	0.820884
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11467439 98 + 22407834
------------CUGGCCUUUACCAAUUAUUGCAAUGCGCUCUGCGCACGCACCUCCGGCAAUUAAAAUUAAUUUC-CUCGCAGACGCCAUUGUCUGGCGCAAAAGCCAGA
------------.(((......)))......((((((.((((((((....)......((.(((((....))))).)-)..))))).))))))))(((((......))))). ( -28.90)
>DroPse_CAF1 31611 101 + 1
UGGCCUCUGCAUCUGGCCUCUGCCAAUUAUUGUAGUG-------CGCACGCACCUCCGGCAAUUAAAAUUAAUUUCCCUCGCAGACGCCAUUGUCUGGCGG---GGCCCAG
.((((.((((...((((.(((((...........(((-------(....))))....((.(((((....))))).))...))))).)))).......))))---))))... ( -34.60)
>DroEre_CAF1 31503 98 + 1
------------CUGGCCUUUGCCAAUUAUUGCAACGCGCUCUGCGCACGCACCUCCGGCAAUUAAAAUUAAUUUC-CUCGCAGACGCCAUUGUCUGGCGCAAAAGCCAGU
------------(((((.(((((......((((...((((...))))..........((.(((((....))))).)-)..))))..((((.....))))))))).))))). ( -31.90)
>DroYak_CAF1 31891 98 + 1
------------CUGGCCUUUGCCAAUUAUUGCAAUGCGCUCUGCGCACGCACCUCCGGCAAUUAAAAUUAAUUUC-CUCGCAGACGCCAUUGUCUGGCGCAAAAGCCAGA
------------(((((.(((((......((((..(((((...))))).........((.(((((....))))).)-)..))))..((((.....))))))))).))))). ( -32.80)
>DroAna_CAF1 29473 102 + 1
--------AGAUCUGGCUUUUGCCAAUUAUUGCAAUGCGCAUUGCGCACGCACCUCGGGCAAUUAAAAUUAAUUUC-CUAGCAGACGCCAUUGUCUGGCGCAAGAGACAGG
--------....(((.(((((((......((((..(((((...)))))........(((.(((((....))))).)-)).))))..((((.....))))))))))).))). ( -31.20)
>DroPer_CAF1 32616 95 + 1
UGGCCUC------UGGCCUCUGCCAAUUAUUGUAGUG-------CGCACGCACCUCCGGCAAUUAAAAUUAAUUUCCCUCGCAGACGCCAUUGUCUGGCGG---GGCCCGG
.((((((------((((.(((((...........(((-------(....))))....((.(((((....))))).))...))))).))))..(.....)))---))))... ( -31.30)
>consensus
____________CUGGCCUUUGCCAAUUAUUGCAAUGCGCUCUGCGCACGCACCUCCGGCAAUUAAAAUUAAUUUC_CUCGCAGACGCCAUUGUCUGGCGCAAAAGCCAGG
............(((((..((((........)))).......(((((..((.......)).....................((((((....)))))))))))...))))). (-19.23 = -20.03 +   0.81)

alignment

secondary structure

dotplot

Window 5

Location	11,467,439 – 11,467,537
Length	98
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	81.50
Mean single sequence MFE	-37.12
Consensus MFE	-27.04
Energy contribution	-28.10
Covariance contribution	1.06
Combinations/Pair	1.25
Mean z-score	-2.70
Structure conservation index	0.73
SVM decision value	1.13
SVM RNA-class probability	0.920506
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11467439 98 - 22407834
UCUGGCUUUUGCGCCAGACAAUGGCGUCUGCGAG-GAAAUUAAUUUUAAUUGCCGGAGGUGCGUGCGCAGAGCGCAUUGCAAUAAUUGGUAAAGGCCAG------------
.(((((((((((((((.....)))).(((((((.-.(((.....)))..))).))))..(((((((((...))))).)))).......)))))))))))------------ ( -38.10)
>DroPse_CAF1 31611 101 - 1
CUGGGCC---CCGCCAGACAAUGGCGUCUGCGAGGGAAAUUAAUUUUAAUUGCCGGAGGUGCGUGCG-------CACUACAAUAAUUGGCAGAGGCCAGAUGCAGAGGCCA
...((((---.(((((.....)))))((((((..((.(((((....))))).)).(.(((((....)-------)))).).....(((((....))))).)))))))))). ( -38.60)
>DroEre_CAF1 31503 98 - 1
ACUGGCUUUUGCGCCAGACAAUGGCGUCUGCGAG-GAAAUUAAUUUUAAUUGCCGGAGGUGCGUGCGCAGAGCGCGUUGCAAUAAUUGGCAAAGGCCAG------------
.(((((((((((((((.....))))...((((.(-(.(((((....))))).))......((((((.....)))))))))).......)))))))))))------------ ( -39.60)
>DroYak_CAF1 31891 98 - 1
UCUGGCUUUUGCGCCAGACAAUGGCGUCUGCGAG-GAAAUUAAUUUUAAUUGCCGGAGGUGCGUGCGCAGAGCGCAUUGCAAUAAUUGGCAAAGGCCAG------------
.(((((((((((((((.....)))).(((((((.-.(((.....)))..))).))))..(((((((((...))))).)))).......)))))))))))------------ ( -40.10)
>DroAna_CAF1 29473 102 - 1
CCUGUCUCUUGCGCCAGACAAUGGCGUCUGCUAG-GAAAUUAAUUUUAAUUGCCCGAGGUGCGUGCGCAAUGCGCAUUGCAAUAAUUGGCAAAAGCCAGAUCU--------
....((((..((((((.....))))))......(-(.(((((....)))))..))))))(((((((((...))))).))))....(((((....)))))....-------- ( -31.40)
>DroPer_CAF1 32616 95 - 1
CCGGGCC---CCGCCAGACAAUGGCGUCUGCGAGGGAAAUUAAUUUUAAUUGCCGGAGGUGCGUGCG-------CACUACAAUAAUUGGCAGAGGCCA------GAGGCCA
((.((((---.(((((.....)))))(((((.((((.(((((....))))).)).(.(((((....)-------)))).).....)).))))))))).------..))... ( -34.90)
>consensus
CCUGGCUUUUGCGCCAGACAAUGGCGUCUGCGAG_GAAAUUAAUUUUAAUUGCCGGAGGUGCGUGCGCAGAGCGCAUUGCAAUAAUUGGCAAAGGCCAG____________
.((((((...((((((.....))))))......................(((((((...(((((((((...)))))).)))....))))))).))))))............ (-27.04 = -28.10 +   1.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:01 2006