Locus 2299

Sequence ID	2L_DroMel_CAF1
Location	6,217,635 – 6,217,739
Length	104
Max. P	0.856905

overview

Window 0

Location	6,217,635 – 6,217,739
Length	104
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	78.20
Mean single sequence MFE	-25.72
Consensus MFE	-13.32
Energy contribution	-14.60
Covariance contribution	1.28
Combinations/Pair	1.05
Mean z-score	-2.23
Structure conservation index	0.52
SVM decision value	0.81
SVM RNA-class probability	0.856905
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6217635 104 + 22407834
AUUAAAAUUCAUCCACGCAGAUUAUUAACAUUUGCAUCUAAUUUGCAUUCGUAAGAUACAUGGCCGACAAUUAUGCGGCUAUGGCGAACGUAUCGGAUG-GCGGA-------
........((((((..((((((.......))))))......(((((..((....))..((((((((.((....)))))))))))))))......)))))-)....------- ( -32.00)
>DroPse_CAF1 88878 105 + 1
AUUAAAAUUCAUCCACGCAGAUUAUUAACAUUUGCAUCUAAUUUGCAUUUGUAAGAUACAUGGCCGACAAUUAUGUGGCUAUGCCU------CCGAAGG-GAAGGGCCUGCU
................((((.......(((..((((.......))))..)))......(((((((.(((....))))))))))(((------((....)-).)))..)))). ( -31.00)
>DroEre_CAF1 53002 95 + 1
AUUAAAAUUCAUCCACGCAGAUUAUUAACAUUUGCAUCUAAUUUGCAUUCGUAAGAUACAUGGCCGACAAUUAUGCGGCUAUGGCGAACAAAUGG-----------------
............(((.((((((.......))))))......(((((..((....))..((((((((.((....)))))))))))))))....)))----------------- ( -25.20)
>DroWil_CAF1 46326 81 + 1
AUUAAAAUUCAUCCACGCAGAUUAUUAACAUUUGCAUCUAAUUUGCAUUUGUAAGAUACAUGGCCGACAAUUAUGCGGAU-------------C------------------
..........((((..((((((.......)))))).........((((((((..(........)..))))..))))))))-------------.------------------ ( -13.30)
>DroAna_CAF1 25422 102 + 1
AUUAAAAUUCAUCCACGCAGAUUAUUAACAUUUGCAUCUAAUUUGCAUUCGUAAGAUACAUGGCCGACAAUUAUGCGGC--------AUAUAUCGGUGA-CCGGGGGGAUG-
.........(((((..((((((((..............)))))))).((((...((((.(((.(((.((....))))))--------)).))))(....-))))).)))))- ( -24.34)
>DroPer_CAF1 89013 105 + 1
AUUAAAAUUCAU-CACACAGAUUAUUAACAUUUGCAUCUAAUUUGCAUUUGUAAGAUACAUGGCCGACAAUUAUGUGGCUAUGCCU------CCGAAGGGGGAGGGCCUGCA
............-....(((.......(((..((((.......))))..)))......(((((((.(((....))))))))))(((------((......)))))..))).. ( -28.50)
>consensus
AUUAAAAUUCAUCCACGCAGAUUAUUAACAUUUGCAUCUAAUUUGCAUUCGUAAGAUACAUGGCCGACAAUUAUGCGGCUAUG_C_______UCG_AGG_G__GG_______
................((((((.......))))))......(((((....)))))...((((((((.((....))))))))))............................. (-13.32 = -14.60 +   1.28)

alignment

secondary structure

dotplot

Window 1

Location	6,217,635 – 6,217,739
Length	104
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	78.20
Mean single sequence MFE	-24.12
Consensus MFE	-14.36
Energy contribution	-14.31
Covariance contribution	-0.06
Combinations/Pair	1.05
Mean z-score	-1.83
Structure conservation index	0.60
SVM decision value	0.65
SVM RNA-class probability	0.811377
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6217635 104 - 22407834
-------UCCGC-CAUCCGAUACGUUCGCCAUAGCCGCAUAAUUGUCGGCCAUGUAUCUUACGAAUGCAAAUUAGAUGCAAAUGUUAAUAAUCUGCGUGGAUGAAUUUUAAU
-------.....-((((((((((((........((((((....)).)))).)))))))......(((((.((((...((....))...)))).))))))))))......... ( -26.40)
>DroPse_CAF1 88878 105 - 1
AGCAGGCCCUUC-CCUUCGG------AGGCAUAGCCACAUAAUUGUCGGCCAUGUAUCUUACAAAUGCAAAUUAGAUGCAAAUGUUAAUAAUCUGCGUGGAUGAAUUUUAAU
.(((((((..((-(....))------))))...((((((....))).)))..(((((((..............)))))))............))))................ ( -23.54)
>DroEre_CAF1 53002 95 - 1
-----------------CCAUUUGUUCGCCAUAGCCGCAUAAUUGUCGGCCAUGUAUCUUACGAAUGCAAAUUAGAUGCAAAUGUUAAUAAUCUGCGUGGAUGAAUUUUAAU
-----------------..(((..((((((((.((((((....)).)))).)))............(((.((((...((....))...)))).))))))))..)))...... ( -22.80)
>DroWil_CAF1 46326 81 - 1
------------------G-------------AUCCGCAUAAUUGUCGGCCAUGUAUCUUACAAAUGCAAAUUAGAUGCAAAUGUUAAUAAUCUGCGUGGAUGAAUUUUAAU
------------------.-------------((((((.(((((((..((..(((((((..............)))))))...))..))))).)).)))))).......... ( -17.84)
>DroAna_CAF1 25422 102 - 1
-CAUCCCCCCGG-UCACCGAUAUAU--------GCCGCAUAAUUGUCGGCCAUGUAUCUUACGAAUGCAAAUUAGAUGCAAAUGUUAAUAAUCUGCGUGGAUGAAUUUUAAU
-(((((......-.....(((((((--------((((((....)).))).))))))))......(((((.((((...((....))...)))).))))))))))......... ( -28.10)
>DroPer_CAF1 89013 105 - 1
UGCAGGCCCUCCCCCUUCGG------AGGCAUAGCCACAUAAUUGUCGGCCAUGUAUCUUACAAAUGCAAAUUAGAUGCAAAUGUUAAUAAUCUGUGUG-AUGAAUUUUAAU
.((..(((.(((......))------))))...))(((((((((((..((..(((((((..............)))))))...))..))))).))))))-............ ( -26.04)
>consensus
_______CC__C_CCU_CGA_______G_CAUAGCCGCAUAAUUGUCGGCCAUGUAUCUUACAAAUGCAAAUUAGAUGCAAAUGUUAAUAAUCUGCGUGGAUGAAUUUUAAU
..................................((((.(((((((..((..(((((((..............)))))))...))..))))).)).))))............ (-14.36 = -14.31 +  -0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:24 2006