Locus 2621

Sequence ID	2R_DroMel_CAF1
Location	9,243,385 – 9,243,482
Length	97
Max. P	0.945433

overview

Window 5

Location	9,243,385 – 9,243,482
Length	97
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	76.69
Mean single sequence MFE	-20.77
Consensus MFE	-15.29
Energy contribution	-15.32
Covariance contribution	0.03
Combinations/Pair	1.05
Mean z-score	-1.69
Structure conservation index	0.74
SVM decision value	1.35
SVM RNA-class probability	0.945433
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9243385 97 + 20766785
--------------AGACACUUAUAAUGCU--CCCGCAUGCAAUUUCAAGGUAAGACAGUUUGUCAUUAAAACUGCGAAAUUGAGUGCUAGAUAAACAAAAUACCAGGCAG--CC
--------------.............(((--.((((((.(((((((.((.((((((.....))).)))...))..))))))).))))..(.....).........)).))--). ( -19.60)
>DroVir_CAF1 186603 99 + 1
-----------CAUACUCUCUUAUAAUGCUCUAUCGCAUGCAAUUUGAAGGUAAGACAUUUUGUCAUUAAAACUGCGAAAUUGAGUGCUGUAUAAACAAAAUACGCUG-----UC
-----------................((......((((.((((((..((.((((((.....))).)))...))...)))))).)))).((((.......))))))..-----.. ( -15.20)
>DroPse_CAF1 102122 93 + 1
----AGGA------AGGGACUC----CCGU--CCCGCAUGCAAUUUCAAGGUAAGACAGUUUGUCAUUAAAACUGCGAAAUUGAGUGCUGGAUAAACAAAAUACCAAAU------
----.((.------.(((((..----..))--)))((((.(((((((.((.((((((.....))).)))...))..))))))).))))...............))....------ ( -27.50)
>DroWil_CAF1 166569 96 + 1
---------------AACACUUAUAAUGCUCUCUCGCAUGCAAUUUCAAGGUAAGACAUUUUGUCAUUAAAACUGCGAAAUUGAGUGCUAGAUAAACAAAAC--CACUCCA--AA
---------------................(((.((((.(((((((.((.((((((.....))).)))...))..))))))).)))).)))..........--.......--.. ( -18.50)
>DroMoj_CAF1 207258 109 + 1
AGAGAGAAACACAUACACACUUAUAAUGCUAUCUCGCAUGCAGUUUCAAGGUAAGACAUUUUGUCAUUAAAACUGCGAAAUUGAGUGCUGUAUAAACAAAAUACGCAG------C
............(((((((((((..((((......))))(((((((.((.....(((.....))).)).))))))).....)))))).)))))...............------. ( -22.80)
>DroAna_CAF1 127209 99 + 1
--------------AGACACUUAUAAUGCU--CCCGCAUGCAAUUUCAAGGUAAGACAGUUUGUCAUUAAAACUGCGAAAUUGAGUGCUAGAUAAACAAAAUGUAAAGGGGUCCC
--------------.............((.--(((((((.(((((((.((.((((((.....))).)))...))..))))))).)))).......((.....))...)))))... ( -21.00)
>consensus
______________AGACACUUAUAAUGCU__CCCGCAUGCAAUUUCAAGGUAAGACAGUUUGUCAUUAAAACUGCGAAAUUGAGUGCUAGAUAAACAAAAUACCAAG______C
...................................((((.(((((((.((.((((((.....))).)))...))..))))))).))))........................... (-15.29 = -15.32 +   0.03)

alignment

secondary structure

dotplot

Window 6

Location	9,243,385 – 9,243,482
Length	97
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	76.69
Mean single sequence MFE	-22.68
Consensus MFE	-14.72
Energy contribution	-15.50
Covariance contribution	0.78
Combinations/Pair	1.14
Mean z-score	-1.45
Structure conservation index	0.65
SVM decision value	0.55
SVM RNA-class probability	0.778023
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9243385 97 - 20766785
GG--CUGCCUGGUAUUUUGUUUAUCUAGCACUCAAUUUCGCAGUUUUAAUGACAAACUGUCUUACCUUGAAAUUGCAUGCGGG--AGCAUUAUAAGUGUCU--------------
.(--((.((.((((.......))))..(((..((((((((((((((.......)))))))........)))))))..))))).--))).............-------------- ( -22.70)
>DroVir_CAF1 186603 99 - 1
GA-----CAGCGUAUUUUGUUUAUACAGCACUCAAUUUCGCAGUUUUAAUGACAAAAUGUCUUACCUUCAAAUUGCAUGCGAUAGAGCAUUAUAAGAGAGUAUG-----------
..-----..((((((.......)))).))((((......((((((((((.(((.....)))))).....)))))))((((......)))).......))))...----------- ( -18.80)
>DroPse_CAF1 102122 93 - 1
------AUUUGGUAUUUUGUUUAUCCAGCACUCAAUUUCGCAGUUUUAAUGACAAACUGUCUUACCUUGAAAUUGCAUGCGGG--ACGG----GAGUCCCU------UCCU----
------...(((((.......)).)))(((..((((((((((((((.......)))))))........)))))))..)))(((--((..----..))))).------....---- ( -25.30)
>DroWil_CAF1 166569 96 - 1
UU--UGGAGUG--GUUUUGUUUAUCUAGCACUCAAUUUCGCAGUUUUAAUGACAAAAUGUCUUACCUUGAAAUUGCAUGCGAGAGAGCAUUAUAAGUGUU---------------
..--..(((((--.(...........).)))))......((((((((((.(((.....))).....))))))))))((((......))))..........--------------- ( -20.30)
>DroMoj_CAF1 207258 109 - 1
G------CUGCGUAUUUUGUUUAUACAGCACUCAAUUUCGCAGUUUUAAUGACAAAAUGUCUUACCUUGAAACUGCAUGCGAGAUAGCAUUAUAAGUGUGUAUGUGUUUCUCUCU
(------(((..((.......))..))))..........((((((((((.(((.....))).....))))))))))....((((.(((((((((....)))).)))))))))... ( -27.20)
>DroAna_CAF1 127209 99 - 1
GGGACCCCUUUACAUUUUGUUUAUCUAGCACUCAAUUUCGCAGUUUUAAUGACAAACUGUCUUACCUUGAAAUUGCAUGCGGG--AGCAUUAUAAGUGUCU--------------
((....))...................(((((.......((((((((((.(((.....))).....))))))))))((((...--.))))....)))))..-------------- ( -21.80)
>consensus
G______CUUGGUAUUUUGUUUAUCCAGCACUCAAUUUCGCAGUUUUAAUGACAAAAUGUCUUACCUUGAAAUUGCAUGCGAG__AGCAUUAUAAGUGUCU______________
...........................(((((.......((((((((((.(((.....))).....))))))))))((((......))))....)))))................ (-14.72 = -15.50 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:48 2006