Locus 5669

Sequence ID	2L_DroMel_CAF1
Location	16,100,375 – 16,100,505
Length	130
Max. P	0.945741

overview

Window 5

Location	16,100,375 – 16,100,476
Length	101
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	75.00
Mean single sequence MFE	-28.87
Consensus MFE	-14.73
Energy contribution	-14.87
Covariance contribution	0.14
Combinations/Pair	1.15
Mean z-score	-1.96
Structure conservation index	0.51
SVM decision value	0.81
SVM RNA-class probability	0.856574
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16100375 101 + 22407834
G--GUCCCUGCUGCAUAGAAGACCUUCUUGGA-GGGGGCUGUCUGCAAAUGUGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAUUGCGG
(--(((((..((.((.((((....)))))).)-)))))))..(((((((((.((((((....))))))..)))((((((((........)))))))).)))))) ( -32.70)
>DroPse_CAF1 38658 82 + 1
GGGGUCCCUGCUGCCUG---------CU-----GGG--------GCAAAUGUGACACGUUUGGGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGUACUGCGC
...(((((.((.....)---------).-----)))--------))......(((((......)))))...((((((((((........))))))))))..... ( -25.60)
>DroYak_CAF1 31782 100 + 1
G--GUCCCUGCUGCAUAGA-GGCCAACUUGGA-AGGGGCUGUCUGCAAAUGCGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAUUGCGG
(--((((((....(...((-(.....))).).-)))))))..((((((....((((((....))))))....(((((((((........))))))))))))))) ( -30.80)
>DroMoj_CAF1 58355 87 + 1
----CCCCUGCCCCAUUG-------CCUUG------CGAUGGUUGCAAAUGCGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAUCGAAC
----....(((.((((((-------(...)------))))))..))).....((((((....))))))(((((((((((((........))))))))).)))). ( -27.20)
>DroAna_CAF1 28515 102 + 1
G--GUCCCUGCUGUAAGGAUGGCUGAGCGGAAUGGGGAUUGUCUGCAAAUGUGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAGUGCGG
(--((((((.((((..((....))..))))...)))))))..(((((.(((.((((((....))))))..)))((((((((........))))))))..))))) ( -31.30)
>DroPer_CAF1 40739 82 + 1
GGGGUCCCUGCUGCCUG---------CU-----GGG--------GCAAAUGUGACACGUUUGGGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGUACUGCGC
...(((((.((.....)---------).-----)))--------))......(((((......)))))...((((((((((........))))))))))..... ( -25.60)
>consensus
G__GUCCCUGCUGCAUGG________CUUG___GGGGG_UGUCUGCAAAUGUGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAUUGCGC
........(((.................................(((((((.....)))))))........((((((((((........)))))))))).))). (-14.73 = -14.87 +   0.14)

alignment

secondary structure

dotplot

Window 6

Location	16,100,404 – 16,100,505
Length	101
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	76.83
Mean single sequence MFE	-23.45
Consensus MFE	-14.99
Energy contribution	-14.77
Covariance contribution	-0.22
Combinations/Pair	1.12
Mean z-score	-1.98
Structure conservation index	0.64
SVM decision value	1.36
SVM RNA-class probability	0.945741
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16100404 101 + 22407834
A-GGGGGCUGUCUGCAAAUGUGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAUUGCGGACG-----------AGCAGAAAUAAUGCUAAAUUCUUAAU
(-((((..((((((((((((.((((((....))))))..)))((((((((........)))))))).)))))))))-----------((((.......))))...)))))... ( -29.90)
>DroPse_CAF1 38677 95 + 1
--GGG--------GCAAAUGUGACACGUUUGGGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGUACUGCGCAAGA--------CAAAAAAAAAAAAUGCUAAAUUCUUAAU
--...--------.((((((.....))))))((((((((.((((((((((........))))))))))(((....).--------)).......))))))))........... ( -20.60)
>DroGri_CAF1 30802 89 + 1
-----CGAUGACUGCAAAUGCGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAUUGCAAAAAAAA-------------------AGCUAAAUUCUUAAU
-----(((.(((((((((((.....)))))))).))).)))(((((((((........)))))))))............-------------------............... ( -18.60)
>DroMoj_CAF1 58374 108 + 1
-----CGAUGGUUGCAAAUGCGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAUCGAACAAAAAACAGCAACAACAACAAAUAUGGCUAAAUUCUUAAU
-----.....(((((......((((((....))))))(((((((((((((........))))))))).)))).........)))))........................... ( -24.20)
>DroAna_CAF1 28544 102 + 1
AUGGGGAUUGUCUGCAAAUGUGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAGUGCGGACG-----------AACAAAAAUAAUGCUAAAUUCUUAAU
.(((((((((((((((.(((.((((((....))))))..)))((((((((........))))))))..))))))).-----------..((.......))...)))))))).. ( -26.80)
>DroPer_CAF1 40758 94 + 1
--GGG--------GCAAAUGUGACACGUUUGGGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGUACUGCGCAAGA--------CAAAAA-AAAAAAUGCUAAAUUCUUAAU
--...--------.((((((.....))))))((((((((.((((((((((........))))))))))(((....).--------))....-..))))))))........... ( -20.60)
>consensus
__GGG_G_UG_CUGCAAAUGUGACACGUUUGUGUGUUUUCGUGCGUGUAAUAAAUUUUUUAUAUGCAUUGCGCAAGA__________AAAA_AAAUAAUGCUAAAUUCUUAAU
.............((......(((((......)))))...((((((((((........))))))))))...............................))............ (-14.99 = -14.77 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:48 2006