Locus 8932

Sequence ID	3R_DroMel_CAF1
Location	23,952,528 – 23,952,640
Length	112
Max. P	0.980495

overview

Window 0

Location	23,952,528 – 23,952,621
Length	93
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	86.54
Mean single sequence MFE	-26.73
Consensus MFE	-22.55
Energy contribution	-22.55
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.84
Structure conservation index	0.84
SVM decision value	0.39
SVM RNA-class probability	0.718367
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23952528 93 + 27905053
UUUUAUCCCCCAUC----------CUUCG------GCUGGCAACUAAAAAUGGAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAG
(((((....(((.(----------(...)------).)))....))))).((((...(((.....)))(((((((((((((........)))))))))))))))))... ( -25.20)
>DroSec_CAF1 154263 99 + 1
UCUUAUCCCCCAUC----------CUUCGGCAAUGGCUGGCAACUAAAAAUGGAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAG
.....(((.((((.----------(....)..))))..(....).......))).............((((((((((((((........))))))))))))))...... ( -26.60)
>DroSim_CAF1 155812 99 + 1
UCUUAUCCCCCAUC----------CUUCGGCAAUGGCUGGCAACUAAAAAUGGAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAG
.....(((.((((.----------(....)..))))..(....).......))).............((((((((((((((........))))))))))))))...... ( -26.60)
>DroEre_CAF1 162306 97 + 1
-UUCAUCC-CCAUC----------CCUCGGCAAUGGCUGGCAACUAAAAAUGGAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAG
-((((...-((((.----------....(((....)))(....).....)))).....)))).....((((((((((((((........))))))))))))))...... ( -26.40)
>DroYak_CAF1 162344 96 + 1
CUUCCUCC-CCUUC----------CCCCCCUCC--UUCGGCAACUAAAAAUGGAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAG
.((((...-.....----------....((...--...))...........))))............((((((((((((((........))))))))))))))...... ( -23.30)
>DroAna_CAF1 163032 107 + 1
--CCAUGCCCCAUUCACUUUUUCACUUCGGCAACGACUGGCAACUAAAAAUGGAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAG
--..........((((.(((((((..(((....)))..(....)......))))))).)))).....((((((((((((((........))))))))))))))...... ( -32.30)
>consensus
UUUCAUCCCCCAUC__________CUUCGGCAAUGGCUGGCAACUAAAAAUGGAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAG
......................................(....)......((((...(((.....)))(((((((((((((........)))))))))))))))))... (-22.55 = -22.55 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	23,952,548 – 23,952,640
Length	92
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	76.83
Mean single sequence MFE	-29.92
Consensus MFE	-20.14
Energy contribution	-20.17
Covariance contribution	0.03
Combinations/Pair	1.07
Mean z-score	-2.32
Structure conservation index	0.67
SVM decision value	1.86
SVM RNA-class probability	0.980495
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23952548 92 + 27905053
CUGGCAACUAAAAAUG-------GAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAGUGGA-UGUGCCUG---------UGC------CUCA-
..((((.(((....((-------((...(((.....)))(((((((((((((........)))))))))))))))))...))).-..))))..---------...------....- ( -29.50)
>DroVir_CAF1 172702 99 + 1
AUGUAAACUCAAAAUG-------GGAAAUUGAACAACAACUUCUGCUCGCUUUGCUGCCCGAGCGAGCGGAAGCU-GCAGCAGUCCC---CUGCCCAACGCCUGC------CUCAA
...............(-------((...(((.....((.(((((((((((((........))))))))))))).)-)..((((....---)))).)))..)))..------..... ( -30.10)
>DroPse_CAF1 165597 96 + 1
CUGGCAGCUAAAAAUGGAAAAUGGAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACACUACA-UG---CUG---------CCC------CACA-
..((((((.....(((.....((((...(((.....)))(((((((((((((........))))))))))))))))).....))-))---)))---------)).------....- ( -33.40)
>DroWil_CAF1 197122 89 + 1
CUGCCAACUAAAAAUG-------GAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAUAGAC-AG---CUU---------UGG------CUCA-
..((((((((....((-------((...(((.....)))(((((((((((((........)))))))))))))))))..)))..-..---..)---------)))------)...- ( -26.70)
>DroYak_CAF1 162367 98 + 1
UCGGCAACUAAAAAUG-------GAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAGUGGA-UGUGCCUG---------UGCCUGUACCUCA-
..((((.(((....((-------((...(((.....)))(((((((((((((........)))))))))))))))))...))).-..))))..---------.............- ( -29.80)
>DroAna_CAF1 163066 95 + 1
CUGGCAACUAAAAAUG-------GAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAGUGCC-UGUGCCUC---------AUUCUGUGCC----
..((((.........(-------(..............((((((((((((((........)))))))))))))).(((((...)-))))))..---------......))))---- ( -30.03)
>consensus
CUGGCAACUAAAAAUG_______GAAAAUUGAACAACAACUUCUGCUCGUUUUGCUGCCCGAGCGAGCGGAAGUCCACAGUGGA_UG___CUG_________UGC______CUCA_
......................................((((((((((((((........)))))))))))))).......................................... (-20.14 = -20.17 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:59 2006