Locus 1332

Sequence ID	2R_DroMel_CAF1
Location	5,144,195 – 5,144,314
Length	119
Max. P	0.912860

overview

Window 6

Location	5,144,195 – 5,144,297
Length	102
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	82.91
Mean single sequence MFE	-17.68
Consensus MFE	-12.92
Energy contribution	-12.78
Covariance contribution	-0.14
Combinations/Pair	1.06
Mean z-score	-1.90
Structure conservation index	0.73
SVM decision value	0.33
SVM RNA-class probability	0.691710
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5144195 102 + 20766785
UCAUCUUUGUGCGUCCUGCCUGUUAAUUUACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGGCAGUGCCU--CCCUCCCCCCCUUUCCUUCUAAG-
............(..(((((((...........(((((.((((.........)))))))))......)))))))..)..--.......................- ( -22.13)
>DroSec_CAF1 20058 103 + 1
UCAUCUUUAUGCGUCCUGCCUGUUAAUUUACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGGCAGUGUUCC-CCCUCCCACCAUCCCCUUCUAAG-
........(((.(..((((..((......))..))))..)))).((((....))))((((((.......)))))).....-.......................- ( -20.40)
>DroSim_CAF1 6171 104 + 1
UCAUCUUUAUGCGUCCUGCCUGUUAAUUUACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGGCAGUGUCCCAACCUCCCCCCAUCCCCUUCUAAG-
.........((.(.((((((((...........(((((.((((.........)))))))))......))))))).).).)).......................- ( -21.53)
>DroEre_CAF1 22018 84 + 1
UCAUCUUUAUGCGUCCUGCCUGUUAAUUUACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAU--------UCCCC-UCC-----------CCUUCUAAG-
..........(((..((((..((......))..))))...((.(((((....))))).)).)))...--------.....-...-----------.........- ( -13.00)
>DroYak_CAF1 20147 101 + 1
UCAUCUUUAUGCGUCCUGUCUGUUAAUUUACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGACUGUUCCCC-UCAGUUCACCAU--GCUUCUAAG-
..........((((..((...............(((((.((((.........)))))))))........(((((......-.)))))))..))--)).......- ( -16.00)
>DroAna_CAF1 42105 89 + 1
UCAUCUUCAUGCGUCCUGCCUGUUAAUUUACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAUGCU----UCC-CCCU-----------UUUCUAAGC
..........(((..((((..((......))..))))...((.(((((....))))).)).))).........----...-....-----------......... ( -13.00)
>consensus
UCAUCUUUAUGCGUCCUGCCUGUUAAUUUACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGGCAGUGCCCC_CCCUCCC_CCAU__CCUUCUAAG_
..........(((..((((..((......))..))))...((.(((((....))))).)).)))......................................... (-12.92 = -12.78 +  -0.14)

alignment

secondary structure

dotplot

Window 7

Location	5,144,223 – 5,144,314
Length	91
Sequences	4
Columns	93
Reading direction	forward
Mean pairwise identity	87.75
Mean single sequence MFE	-22.00
Consensus MFE	-17.00
Energy contribution	-17.75
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-2.22
Structure conservation index	0.77
SVM decision value	1.09
SVM RNA-class probability	0.912860
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5144223 91 + 20766785
UACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGGCAGUGCCU--CCCUCCCCCCCUUUCCUUCUAAGCAUGUUGUGCUGCUGCC
.....(((((......((((....))))((((((.......))))))....--.....................(((((...)))))))))). ( -21.90)
>DroSec_CAF1 20086 92 + 1
UACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGGCAGUGUUCC-CCCUCCCACCAUCCCCUUCUAAGCAUGUUGUGCUGCUGCC
.....(((((......((((....))))((((((.......)))))).....-.....................(((((...)))))))))). ( -21.90)
>DroSim_CAF1 6199 93 + 1
UACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGGCAGUGUCCCAACCUCCCCCCAUCCCCUUCUAAGCAUGUUGUGCUGCUGCC
.....(((((......((((....))))((((((.......))))))...........................(((((...)))))))))). ( -21.90)
>DroYak_CAF1 20175 90 + 1
UACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGACUGUUCCCC-UCAGUUCACCAU--GCUUCUAAGCAUGUUGUGCUGCUCCU
.....(((((.((((.........)))))))))...................-.((((.((.(((--(((....)))))).)).))))..... ( -22.30)
>consensus
UACUUGCAGUUCCGUUCCAUUUUUAUGGACUGCCGCCAUCAGGCAGUGCCCC_CCCUCCCACCAUCCCCUUCUAAGCAUGUUGUGCUGCUGCC
.....(((((......((((....))))((((((.......))))))...........................(((((...)))))))))). (-17.00 = -17.75 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:24 2006