Locus 5130

Sequence ID	2L_DroMel_CAF1
Location	14,568,636 – 14,568,732
Length	96
Max. P	0.851496

overview

Window 1

Location	14,568,636 – 14,568,732
Length	96
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	74.15
Mean single sequence MFE	-26.37
Consensus MFE	-12.24
Energy contribution	-11.97
Covariance contribution	-0.28
Combinations/Pair	1.06
Mean z-score	-1.77
Structure conservation index	0.46
SVM decision value	0.06
SVM RNA-class probability	0.565618
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14568636 96 + 22407834
---------------------UCAAGACGUUGAUGGC--AGCGUCGCA-AAAUAUGGGCAAAGGCUGCAAGCGGCAACAACAUAAUAAAUUAAUUAUAUGCAACAUCAGCAACAGUGCCU
---------------------....(((((((....)--))))))...-......(((((...((((...(((....)...(((((......)))))..)).....)))).....))))) ( -24.70)
>DroVir_CAF1 42336 87 + 1
-----------------------------AAGAGGACAAGACCUCGCA-AUAUAUGGCCACAGGCUGC-AGCGGCAACAACAUAAUAAAUUAAUUAUAUGCAACAUCAACAGCCCGAG--
-----------------------------..((((......))))((.-.......))..(.(((((.-...(....)...(((((......)))))............))))).)..-- ( -15.40)
>DroPse_CAF1 113474 118 + 1
GGGGGGCGCUCGAGGAGCCAGCCAUGACGAUGAUGGC--AACGUCGCAGAAAUAUGGCCAAAGGCUGCAAGCGGCAACAACAUAAUAAAUUAAUUAUAUGCAACAUCAGCAUCGGGGGCC
....(((.((((((.((((.((((((.(..(((((..--..)))))..)...))))))....)))).)..(((....)...(((((......)))))...........)).))))).))) ( -37.70)
>DroEre_CAF1 95012 96 + 1
---------------------UGAAGACGUUGAUGGC--AGCGUCGCA-AAAUAUGGGCAAAGGCUGCCAGCGGCAACAACAUAAUAAAUUAAUUAUAUGCAACAUCAGCAACUGUGCCA
---------------------....(((((((....)--))))))...-.......((((.((((((....)))).......................(((.......))).)).)))). ( -25.00)
>DroAna_CAF1 38100 89 + 1
---------------------UCGCCACGAUGAUGCC--GACGUCGCA-AAAUAUAGGCAAAGGCUGCAAGCGGCAACAACAUAAUAAAUUAAUUAUAUGCAACAUCAGCA-------CU
---------------------..((...((((.(((.--...(((((.-.......(((....)))....)))))......(((((......)))))..))).)))).)).-------.. ( -17.70)
>DroPer_CAF1 117807 117 + 1
G-GGGGCGCUCGAGGAGCCAGCCAUGACGAUGAUGGC--AACGUCGCAGAAAUAUGGCCAAAGGCUGCAAGCGGCAACAACAUAAUAAAUUAAUUAUAUGCAACAUCAGCAUCGGGGGCC
.-..(((.((((((.((((.((((((.(..(((((..--..)))))..)...))))))....)))).)..(((....)...(((((......)))))...........)).))))).))) ( -37.70)
>consensus
_____________________UCAAGACGAUGAUGGC__AACGUCGCA_AAAUAUGGCCAAAGGCUGCAAGCGGCAACAACAUAAUAAAUUAAUUAUAUGCAACAUCAGCAACGGGGGCC
...............................((((......))))(((...............((((....))))......(((((......))))).)))................... (-12.24 = -11.97 +  -0.28)

alignment

secondary structure

dotplot

Window 2

Location	14,568,636 – 14,568,732
Length	96
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	74.15
Mean single sequence MFE	-28.37
Consensus MFE	-15.15
Energy contribution	-15.43
Covariance contribution	0.28
Combinations/Pair	1.05
Mean z-score	-1.83
Structure conservation index	0.53
SVM decision value	0.79
SVM RNA-class probability	0.851496
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14568636 96 - 22407834
AGGCACUGUUGCUGAUGUUGCAUAUAAUUAAUUUAUUAUGUUGUUGCCGCUUGCAGCCUUUGCCCAUAUUU-UGCGACGCU--GCCAUCAACGUCUUGA---------------------
.((((.((((((.(((((.(((((((((......))))))).(((((.....)))))....))..))))).-.)))))).)--))).............--------------------- ( -25.70)
>DroVir_CAF1 42336 87 - 1
--CUCGGGCUGUUGAUGUUGCAUAUAAUUAAUUUAUUAUGUUGUUGCCGCU-GCAGCCUGUGGCCAUAUAU-UGCGAGGUCUUGUCCUCUU-----------------------------
--(.((((((((.(..((.(((((((((......)))))).))).))..).-)))))))).)((.......-.))((((......))))..----------------------------- ( -25.90)
>DroPse_CAF1 113474 118 - 1
GGCCCCCGAUGCUGAUGUUGCAUAUAAUUAAUUUAUUAUGUUGUUGCCGCUUGCAGCCUUUGGCCAUAUUUCUGCGACGUU--GCCAUCAUCGUCAUGGCUGGCUCCUCGAGCGCCCCCC
(((.(.(((.((((((((((((((((((......))))))).(((((.....)))))................))))))))--(((((.......))))).)))...))).).))).... ( -32.00)
>DroEre_CAF1 95012 96 - 1
UGGCACAGUUGCUGAUGUUGCAUAUAAUUAAUUUAUUAUGUUGUUGCCGCUGGCAGCCUUUGCCCAUAUUU-UGCGACGCU--GCCAUCAACGUCUUCA---------------------
(((((..(((((.(((((.(((((((((......))))))).((((((...))))))....))..))))).-.)))))..)--))))............--------------------- ( -27.00)
>DroAna_CAF1 38100 89 - 1
AG-------UGCUGAUGUUGCAUAUAAUUAAUUUAUUAUGUUGUUGCCGCUUGCAGCCUUUGCCUAUAUUU-UGCGACGUC--GGCAUCAUCGUGGCGA---------------------
.(-------(((((((((((((((((((......))))))).(((((.....)))))..............-.))))))))--)))))...........--------------------- ( -27.60)
>DroPer_CAF1 117807 117 - 1
GGCCCCCGAUGCUGAUGUUGCAUAUAAUUAAUUUAUUAUGUUGUUGCCGCUUGCAGCCUUUGGCCAUAUUUCUGCGACGUU--GCCAUCAUCGUCAUGGCUGGCUCCUCGAGCGCCCC-C
(((.(.(((.((((((((((((((((((......))))))).(((((.....)))))................))))))))--(((((.......))))).)))...))).).)))..-. ( -32.00)
>consensus
AGCCCCCGAUGCUGAUGUUGCAUAUAAUUAAUUUAUUAUGUUGUUGCCGCUUGCAGCCUUUGCCCAUAUUU_UGCGACGUU__GCCAUCAUCGUCAUGA_____________________
.............(((((((((((((((......))))))).(((((.....)))))................))))))))....................................... (-15.15 = -15.43 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:48 2006