Locus 2713

Sequence ID	X_DroMel_CAF1
Location	7,276,692 – 7,276,826
Length	134
Max. P	0.973215

overview

Window 0

Location	7,276,692 – 7,276,804
Length	112
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	90.49
Mean single sequence MFE	-22.28
Consensus MFE	-19.07
Energy contribution	-18.93
Covariance contribution	-0.14
Combinations/Pair	1.04
Mean z-score	-1.58
Structure conservation index	0.86
SVM decision value	0.16
SVM RNA-class probability	0.611394
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7276692 112 + 22224390
-------AGACAAUUGUCAAUUGCAUAUCCUUUUCGCAUUAAUAUUUCAUUAACAACAUUUGUGCGGAAGUUUGAUCUUCUGCAUCAAUGGCUUGUAAAAUUGACUUGG-CCCAACACAA
-------...(((..(((((((((...........))...............(((.((((.(((((((((......))))))))).))))...)))..)))))))))).-.......... ( -23.80)
>DroVir_CAF1 39930 108 + 1
-------AGACAAUUGUCAAUUGCAUAUCCUUUUCGCAUUAAUAUUUCAUUAACAACAUUU--GCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGGGCCCAACA---
-------........(((((((..(((..(........(((((.....)))))...(((((--(((((((......))))))))..)))))..)))..)))))))(((....)))..--- ( -20.50)
>DroPse_CAF1 54623 105 + 1
-------AGACAAUUGUCAAUUGCAUAUCCUUUUCGCAUUAAUAUUUCAUUAACAACAUUUG-GCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGC-UUCA------
-------.(((....)))....(((..((..(((..(((((((.....)))))...((((..-(((((((......)))))))...))))...))..)))..))..)))-....------ ( -22.10)
>DroWil_CAF1 34219 113 + 1
CCAUCGUUGGCGAUUGUCAAUUGCAUAUCCUUUUCGCAUUAAUAUUUCAUUAACAACAUUU-UGCGGAAGUUUGAUCUUCUGCAUCAAUGGCUUGUAAAAUUGACUUGA-C--AACC---
.....((((.(((..(((((((((...........))...............(((.((((.-((((((((......))))))))..))))...)))..)))))))))).-)--))).--- ( -24.70)
>DroMoj_CAF1 43650 108 + 1
-------AGACAAUUGUCAAUUGCAUAUCCUUUUCGCAUUAAUAUUUCAUUAACAACAUUU--GCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGGGCCCAACA---
-------........(((((((..(((..(........(((((.....)))))...(((((--(((((((......))))))))..)))))..)))..)))))))(((....)))..--- ( -20.50)
>DroPer_CAF1 81629 105 + 1
-------AGACAAUUGUCAAUUGCAUAUCCUUUUCGCAUUAAUAUUUCAUUAACAACAUUUG-GCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGC-UUCA------
-------.(((....)))....(((..((..(((..(((((((.....)))))...((((..-(((((((......)))))))...))))...))..)))..))..)))-....------ ( -22.10)
>consensus
_______AGACAAUUGUCAAUUGCAUAUCCUUUUCGCAUUAAUAUUUCAUUAACAACAUUU__GCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGG_CCCAACA___
..........(((..((((((((((...((........(((((.....)))))..........(((((((......)))))))......))..))))..)))))))))............ (-19.07 = -18.93 +  -0.14)

alignment

secondary structure

dotplot

Window 1

Location	7,276,725 – 7,276,826
Length	101
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	78.01
Mean single sequence MFE	-19.48
Consensus MFE	-14.93
Energy contribution	-15.60
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.36
Structure conservation index	0.77
SVM decision value	1.71
SVM RNA-class probability	0.973215
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7276725 101 + 22224390
AAUAUUUCAUUAACAACAUUUGUGCGGAAGUUUGAUCUUCUGCAUCAAUGGCUUGUAAAAUUGACUUGG-CCCAACACAAAAAAAAAAAAAA---CCAACAGAAA------
....((((........((((.(((((((((......))))))))).))))(((.((.......))..))-).....................---......))))------ ( -18.60)
>DroGri_CAF1 35004 100 + 1
AAUAUUUCAUUAACAACAUUU--GCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGGGCCCAAGA---------GCAACAACAGCAACAACAGCAACAA
................(((((--(((((((......))))))))..))))..((((........((((....)))).---------((.......)).......))))... ( -19.10)
>DroEre_CAF1 36038 83 + 1
AAUAUUUCAUUAACAACAUUUGUGCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGG-CCCAACA---------GCAAAA---A---------------
......(((...(((.((((.(((((((((......))))))))).))))...))).....)))....(-(......---------))....---.--------------- ( -17.70)
>DroWil_CAF1 34259 84 + 1
AAUAUUUCAUUAACAACAUUU-UGCGGAAGUUUGAUCUUCUGCAUCAAUGGCUUGUAAAAUUGACUUGA-C--AACC--------------C---ACAAGCCAAA------
.....................-((((((((......))))))))....((((((((....(((......-)--))..--------------.---))))))))..------ ( -22.10)
>DroYak_CAF1 52034 83 + 1
AAUAUUUCAUUAACAACAUUUGUGCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGG-CCCAACA---------AAAAAA---A---------------
......(((...(((.((((.(((((((((......))))))))).))))...))).....))).(((.-.....))---------).....---.--------------- ( -17.40)
>DroAna_CAF1 33253 99 + 1
AAUAUUUCAUUAACAACAUUUG-GCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGG-CCCACCC-GGCCAAAAAAAACA---GCAACAACAA------
......(((...(((.((((..-(((((((......)))))))...))))...))).....))).((((-((.....-))))))........---..........------ ( -22.00)
>consensus
AAUAUUUCAUUAACAACAUUUGUGCGGAAGUUUGAUCUUCUGCAUCAAUGGUUUGUAAAAUUGACUUGG_CCCAACA_________AAAAAA___ACAACA__AA______
......(((...(((.((((.(((((((((......))))))))).))))...))).....)))............................................... (-14.93 = -15.60 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:33 2006