Locus 95

Sequence ID	X_DroMel_CAF1
Location	378,229 – 378,320
Length	91
Max. P	0.989208

overview

Window 5

Location	378,229 – 378,320
Length	91
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	66.36
Mean single sequence MFE	-29.20
Consensus MFE	-8.52
Energy contribution	-9.08
Covariance contribution	0.56
Combinations/Pair	1.15
Mean z-score	-2.22
Structure conservation index	0.29
SVM decision value	0.76
SVM RNA-class probability	0.843411
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 378229 91 + 22224390
GUCAGCUCGG-CCCGUCGUCUUUCAAUACUCACUUGUUUU-AGUUUAGG------GAGCGAGUAUGUGUGUAGUU----GGUUUUGGGGAGCUGGUUGGUUGU--
.(((((((..-((((....((..(.((((..(((((((((-.......)------))))))))..))))...)..----))...)))))))))))........-- ( -26.60)
>DroPse_CAF1 12239 95 + 1
CUCUCUUCUUCCC---CAUCUUCAAAUACUCACUUGUUUUCUGUUUAGUUGACUACAGC-------CGGGUCGUUGAGGGGUGUUGGGGAUGAGGGAGGUAUUCC
(((((((..((((---(((((((((..((((..((((..((.........))..)))).-------.))))..)))))))....)))))).)))))))....... ( -32.20)
>DroSec_CAF1 12075 83 + 1
GUCAGCUCGG-CCCGUCGU----CAAUACUCACUUGUUUC-AGUUUAGA------GAGCGAGUAUGUGUGUUGUU----GGUUUUGGGGAGCUGGU----UGU--
.(((((((..-(((((((.----((((((.((((((((((-......))------)).)))))..).)))))).)----))...))))))))))).----...-- ( -27.10)
>DroSim_CAF1 11803 83 + 1
GUCAGCUCGG-CCCGUCGU----CAAUACUCACUUGUUUC-AGUUUAGA------GAGCGAGUAUGUGUGUUGUU----GGUUUUGGGGAGCUGGU----UGU--
.(((((((..-(((((((.----((((((.((((((((((-......))------)).)))))..).)))))).)----))...))))))))))).----...-- ( -27.10)
>DroPer_CAF1 12775 95 + 1
CUCUCUUCUUCCC---CAUCUUCAAAUACUCACUUGUUUUCUGUUUAGUUGAUUACAGC-------CGGGUCGUUGAGGGGUGUUGGGGAUGAGGGAGGUAUUCC
(((((((..((((---(((((((((..((((..((((..((.........))..)))).-------.))))..)))))))....)))))).)))))))....... ( -33.00)
>consensus
GUCAGCUCGG_CCCGUCGUCUU_CAAUACUCACUUGUUUU_AGUUUAGA______GAGCGAGUAUGUGUGUCGUU____GGUUUUGGGGAGCUGGU_GGUUGU__
((((((((...((((.........(((((.(((................................))).)).))).........))))))))))))......... ( -8.52 =  -9.08 +   0.56)

alignment

secondary structure

dotplot

Window 6

Location	378,229 – 378,320
Length	91
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	66.36
Mean single sequence MFE	-20.34
Consensus MFE	-7.74
Energy contribution	-9.58
Covariance contribution	1.84
Combinations/Pair	1.12
Mean z-score	-2.53
Structure conservation index	0.38
SVM decision value	2.15
SVM RNA-class probability	0.989208
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 378229 91 - 22224390
--ACAACCAACCAGCUCCCCAAAACC----AACUACACACAUACUCGCUC------CCUAAACU-AAAACAAGUGAGUAUUGAAAGACGACGGG-CCGAGCUGAC
--.........(((((((((......----.......((.(((((((((.------........-......)))))))))))...(....))))-..)))))).. ( -21.26)
>DroPse_CAF1 12239 95 - 1
GGAAUACCUCCCUCAUCCCCAACACCCCUCAACGACCCG-------GCUGUAGUCAACUAAACAGAAAACAAGUGAGUAUUUGAAGAUG---GGGAAGAAGAGAG
.......(((..((.((((((.((...((((........-------.((((((....))..))))........))))....))....))---)))).)).))).. ( -19.33)
>DroSec_CAF1 12075 83 - 1
--ACA----ACCAGCUCCCCAAAACC----AACAACACACAUACUCGCUC------UCUAAACU-GAAACAAGUGAGUAUUG----ACGACGGG-CCGAGCUGAC
--...----..(((((((((......----..........(((((((((.------((......-))....))))))))).(----....))))-..)))))).. ( -21.20)
>DroSim_CAF1 11803 83 - 1
--ACA----ACCAGCUCCCCAAAACC----AACAACACACAUACUCGCUC------UCUAAACU-GAAACAAGUGAGUAUUG----ACGACGGG-CCGAGCUGAC
--...----..(((((((((......----..........(((((((((.------((......-))....))))))))).(----....))))-..)))))).. ( -21.20)
>DroPer_CAF1 12775 95 - 1
GGAAUACCUCCCUCAUCCCCAACACCCCUCAACGACCCG-------GCUGUAAUCAACUAAACAGAAAACAAGUGAGUAUUUGAAGAUG---GGGAAGAAGAGAG
.......(((..((.((((((.((...((((........-------.((((..........))))........))))....))....))---)))).)).))).. ( -18.73)
>consensus
__ACAACC_ACCAGCUCCCCAAAACC____AACAACACACAUACUCGCUC______ACUAAACU_AAAACAAGUGAGUAUUG_AAGACGACGGG_CCGAGCUGAC
...........((((((.......((..............(((((((((......................)))))))))............))...)))))).. ( -7.74 =  -9.58 +   1.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:09 2006