Locus 5706

Sequence ID	X_DroMel_CAF1
Location	14,780,671 – 14,780,820
Length	149
Max. P	0.939798

overview

Window 0

Location	14,780,671 – 14,780,790
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	70.46
Mean single sequence MFE	-27.72
Consensus MFE	-8.70
Energy contribution	-9.74
Covariance contribution	1.04
Combinations/Pair	1.07
Mean z-score	-2.10
Structure conservation index	0.31
SVM decision value	1.30
SVM RNA-class probability	0.939798
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14780671 119 - 22224390
AUUAUUCUAUUGCUAUUUAGGUGGUAAAUGAUUUAACCCAUAUCAGUGGCAACAGUGUAUAGGGGGUAUAUUUGUUACGCCUAAUUUCACCAUAGUGAUUCAGACACCUGUUCAAUACU
.......(((((.....((((((((((..(((...((((.(((((.((....)).)).)))..))))..)))..))))........((((....))))......))))))..))))).. ( -27.60)
>DroSec_CAF1 15783 100 - 1
AUUAUUCUGUUGCUAAUUAGGUGGUAAACGAUUUAACCCAUAUCAGUGGCAACAGUGUAUAGGGGGUAUAAUUGUACCGC-------------------CAUGACACCUGUUCAAUACU
.......(((((.......((((((..((((((..((((.(((((.((....)).)).)))..))))..)))))))))))-------------------)..(((....)))))))).. ( -28.20)
>DroSim_CAF1 16134 119 - 1
AUUAUUCUGUUGCUAAUUAGGUGGUAAACGAUUUAACCCAUAUCAGUGGCAACAGUGUAUGGGGGGUAUAAUUGUACCGCCUAAUUUCACCAUUGCGAUCAUGACACCUGUUCAAUACU
.....((((((((.(((((((((((..((((((((.((((((.((.((....)).))))))))...)).)))))))))))))))))........)))).)).))............... ( -35.50)
>DroEre_CAF1 10550 93 - 1
AUUAUCCUGUUGCUAAUUAGGUGGUUAAUGAUUUAACCCAUAUCAGUGGUAUG---------GUGUG------------CCUAAUUUCAGCUUAGUUAAU-----CACUGUUCCGUGCU
........((((..(((((((.((((((....))))))(((((((......))---------)))))------------))))))).)))).........-----(((......))).. ( -21.70)
>DroYak_CAF1 10277 101 - 1
AUUAUUCUGUUGCUAAUUAGGUGGUAAAUGAUUUAAGCCAUAUCAGUGGCAAGAGUGUAUUGGGGGU------------UAUUAUUUCACCAUAGUGAUUAUGACACCUGUUC------
..(((.((.((((((.....(((((...........))))).....)))))).)).)))...(((((------------(((....((((....))))..))))).)))....------ ( -25.60)
>consensus
AUUAUUCUGUUGCUAAUUAGGUGGUAAAUGAUUUAACCCAUAUCAGUGGCAACAGUGUAUAGGGGGUAUA_UUGU__CGCCUAAUUUCACCAUAGUGAUUAUGACACCUGUUCAAUACU
..(((.((.((((((.....((((.............)))).....)))))).)).)))............................................................ ( -8.70 =  -9.74 +   1.04)

alignment

secondary structure

dotplot

Window 1

Location	14,780,711 – 14,780,820
Length	109
Sequences	4
Columns	109
Reading direction	reverse
Mean pairwise identity	77.83
Mean single sequence MFE	-27.05
Consensus MFE	-12.45
Energy contribution	-14.70
Covariance contribution	2.25
Combinations/Pair	1.13
Mean z-score	-2.52
Structure conservation index	0.46
SVM decision value	0.28
SVM RNA-class probability	0.664276
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14780711 109 - 22224390
AUGGAUUAUCUUAUCGCAAUGGAAACAUUUAUUAUUCUAUUGCUAUUUAGGUGGUAAAUGAUUUAACCCAUAUCAGUGGCAACAGUGUAUAGGGGGUAUAUUUGUUACG
.((((((((.(((((((((((....)))).......(((........))))))))))))))))))((((.(((((.((....)).)).)))..))))............ ( -28.20)
>DroSec_CAF1 15804 109 - 1
AUGGAUUAUCUUAUCGCAUUAGGAUUUUUUAUUAUUCUGUUGCUAAUUAGGUGGUAAACGAUUUAACCCAUAUCAGUGGCAACAGUGUAUAGGGGGUAUAAUUGUACCG
..(((((((((....(((.((((((........)))))).))).....)))))))..((((((..((((.(((((.((....)).)).)))..))))..)))))).)). ( -30.60)
>DroSim_CAF1 16174 109 - 1
AUGGAUUAUCUUAUCGCAUUAGGAUUUUUUAUUAUUCUGUUGCUAAUUAGGUGGUAAACGAUUUAACCCAUAUCAGUGGCAACAGUGUAUGGGGGGUAUAAUUGUACCG
.((.(((((((....(((.((((((........)))))).))).....)))))))...))......((((((.((.((....)).)))))))).(((((....))))). ( -31.80)
>DroEre_CAF1 10585 83 - 1
A-----UAUCUUAUCGCAUUAUAAGCUUUUAUUAUCCUGUUGCUAAUUAGGUGGUUAAUGAUUUAACCCAUAUCAGUGGUAUG---------GUGUG------------
.-----........(((((((((.(((..(((...((((........)))).((((((....)))))).)))..)))..))))---------)))))------------ ( -17.60)
>consensus
AUGGAUUAUCUUAUCGCAUUAGAAUCUUUUAUUAUUCUGUUGCUAAUUAGGUGGUAAACGAUUUAACCCAUAUCAGUGGCAACAGUGUAUAGGGGGUAUAAUUGUACCG
....(((((((....(((.((((((........)))))).))).....)))))))...........(((....((.((....)).)).....))).............. (-12.45 = -14.70 +   2.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:27 2006