Locus 6821

Sequence ID	X_DroMel_CAF1
Location	16,977,849 – 16,977,981
Length	132
Max. P	0.898783

overview

Window 6

Location	16,977,849 – 16,977,947
Length	98
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	77.78
Mean single sequence MFE	-17.03
Consensus MFE	-11.88
Energy contribution	-10.97
Covariance contribution	-0.91
Combinations/Pair	1.24
Mean z-score	-1.66
Structure conservation index	0.70
SVM decision value	1.00
SVM RNA-class probability	0.898783
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16977849 98 - 22224390
UAAUUUCCAUCCUUUAUUAUCCUUGUGCUUGUAAUAUUGCUUAGUUCAAUGCACAUGAGAAACGUAAAGGAACACUAGCUUU-AAAUAAGUUAGGGACU----
.....(((.((((((((..(((.((((((((...((.....))...))).))))).).))...))))))))...(((((((.-....))))))))))..---- ( -26.50)
>DroVir_CAF1 5082 96 - 1
CAAUGUAUGUCUUUUAUUAUCCUUGUGCUUGUGGCAACACUCAGCUCAAUGCACACGAGAAACGUAGAAGAACAAUU-------AAUAAGUCUAAGCAUGAAC
.......((((((((((....((((((...(((....)))...((.....)).))))))....))))))).)))...-------................... ( -20.00)
>DroSim_CAF1 4764 98 - 1
UAAUUCACAUCCUUUAUUAUCCUUGUGCUUGUAAUAUUACUUAGUUCAAUGCACACGAGAAACGUAAAUGAACACUAGCUUU-AAAUAAGUUAGGAACU----
...(((...((.(((((..(((.((((((((...((.....))...))).))))).).))...))))).))...(((((((.-....))))))))))..---- ( -17.70)
>DroEre_CAF1 6059 97 - 1
CAAUCACCAUCCUUUAUUAUCCUUGUGCUUGUAAUAUCAUUUAGUUCAAUGCACACGAGAAACGUAAAAGAACACUCGA-AU-AAAUAAAUUAGCAACU----
............((((((.....((((((((...((.....))...))).)))))((((...............)))))-))-))).............---- ( -11.16)
>DroYak_CAF1 6468 98 - 1
UAAUUCCCAUCCUUUAUUAUCCUUGUGCUUGCAAUAUCAUUCAGUUCAAUGCACACGAGAAACGUAAAAGAACACUAGCUUU-AAAUAAGUUGAGAACU----
.........((.(((((..(((.((((((((.(((........)))))).))))).).))...))))).))....((((((.-....))))))......---- ( -13.10)
>DroAna_CAF1 8230 96 - 1
AAAUCCCCAUUUUUUAUUAUCCUUGUGCUUGUAACACACUCCAGUUCAAUGCACACGAGAAACGUAAAAGAACACUAUCUUCUAAAU---CUUAAAAAU----
.........((((((((..(((.((((((((.(((........)))))).))))).).))...))))))))................---.........---- ( -13.70)
>consensus
UAAUUCCCAUCCUUUAUUAUCCUUGUGCUUGUAAUAUCACUCAGUUCAAUGCACACGAGAAACGUAAAAGAACACUAGCUUU_AAAUAAGUUAAGAACU____
.........((.(((((..(((.((((((((.(((........)))))).))))).).))...))))).))................................ (-11.88 = -10.97 +  -0.91)

alignment

secondary structure

dotplot

Window 7

Location	16,977,872 – 16,977,981
Length	109
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	80.01
Mean single sequence MFE	-24.65
Consensus MFE	-18.63
Energy contribution	-18.66
Covariance contribution	0.03
Combinations/Pair	1.23
Mean z-score	-1.48
Structure conservation index	0.76
SVM decision value	0.56
SVM RNA-class probability	0.782020
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16977872 109 - 22224390
G------GUUUAAUUAUGUAGUCUCGCUUUUGGACCAGAUUAAUUUCC--AUCCUUUAUUAUCCUUGUGCUUGUAAUAUUG--CUUAGUUCAAUGCACAUGAGAAACGUAAAGGAACAC
(------((((((....((......))..)))))))............--.((((((((..(((.((((((((...((...--..))...))).))))).).))...)))))))).... ( -23.00)
>DroVir_CAF1 5103 115 - 1
GUCACUUGGAUAUUGUUGCAGACUCGCUUUUGGACACGAGCAAUGUAU--GUCUUUUAUUAUCCUUGUGCUUGUGGCAACA--CUCAGCUCAAUGCACACGAGAAACGUAGAAGAACAA
.........((((((((((......))...((....)))))))))).(--(((((((((....((((((...(((....))--)...((.....)).))))))....))))))).))). ( -25.60)
>DroPse_CAF1 4689 113 - 1
G------GUUUAUUUAUGUAGUCUCGCUUUUGGACAAAACUAAUCCACAAAUCUUUUAUUAUCCUUGUGCUUGUGGCACUAUCCCCUGUCCAAUGCACACGAGAAACGUAGAAGAACAU
.------((((.(((((((..(((((....((((.........))))..................((((((((.((((........))))))).)))))))))).))))))).)))).. ( -28.30)
>DroEre_CAF1 6081 109 - 1
G------GUUUAUUUAUGUAGUCUCGCUUUUGGACCAGAACAAUCACC--AUCCUUUAUUAUCCUUGUGCUUGUAAUAUCA--UUUAGUUCAAUGCACACGAGAAACGUAAAAGAACAC
.------((((.(((((((..(((((.....(((...((....))...--.)))...........((((((((...((...--..))...))).)))))))))).))))))).)))).. ( -22.80)
>DroAna_CAF1 8251 109 - 1
G------GCUUAUUUAUGUAGUCUCGCUUUUGGACCAGAAAAAUCCCC--AUUUUUUAUUAUCCUUGUGCUUGUAACACAC--UCCAGUUCAAUGCACACGAGAAACGUAAAAGAACAC
.------.....(((((((..(((((.....(((...(((((((....--)))))))....))).((((((((.(((....--....)))))).)))))))))).)))))))....... ( -23.40)
>DroPer_CAF1 4708 113 - 1
G------GUUUAUUUAUGUAGACUCGCUUUUGGACAAAACUAACCCACAAAUCUUUUAUUAUCCUUGUGCUUGUGGCACUAUCCCCUGUCCAAUGCACACGAGAAACGUAGAAGAACAU
.------((((.(((((((...((((....(((...........)))..................((((((((.((((........))))))).)))))))))..))))))).)))).. ( -24.80)
>consensus
G______GUUUAUUUAUGUAGUCUCGCUUUUGGACAAGAAUAAUCCAC__AUCUUUUAUUAUCCUUGUGCUUGUAACACUA__CCCAGUUCAAUGCACACGAGAAACGUAAAAGAACAC
.......((((.(((((((..(((((.....(((...........................))).((((((((.(((..........)))))).)))))))))).))))))).)))).. (-18.63 = -18.66 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:44 2006