Locus 6183

Sequence ID	3L_DroMel_CAF1
Location	16,381,518 – 16,381,653
Length	135
Max. P	0.956508

overview

Window 6

Location	16,381,518 – 16,381,613
Length	95
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	72.91
Mean single sequence MFE	-20.53
Consensus MFE	-13.74
Energy contribution	-13.77
Covariance contribution	0.03
Combinations/Pair	1.08
Mean z-score	-1.65
Structure conservation index	0.67
SVM decision value	1.47
SVM RNA-class probability	0.956508
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16381518 95 + 23771897
CAUAUAUAUCUCUA------AAUGGACAGAAUCAUAGAGAAAAAACAUCAAUGAAACCCACUUGUAGAGCAGCAAAUGCUUGGUGGUGGAUAUCUGCCACU
..............------..(((.((((.((((.((.........)).))))...(((((....(((((.....)))))...)))))...))))))).. ( -23.30)
>DroSec_CAF1 11181 84 + 1
CACA----------------UGUGGAAAGAAUCAUAGAGAAA-UACAACAAUGAAACCCACUUGUAGAGCAGCAAAUGCUUGGUGGUGGAUAUCUGCCACU
.(((----------------.((((......((((.......-.......))))...)))).))).(((((.....)))))(((((..(....)..))))) ( -21.14)
>DroSim_CAF1 11164 84 + 1
CAUA----------------AGUGGACAGAAUCAUAGAGAAA-AACAACAAUGAAACCCACUUGUAGAGCAGCAAAUGCUUGGUGGUGGAUAUCUGCCACU
....----------------(((((.((((.((((.......-.......))))...(((((....(((((.....)))))...)))))...))))))))) ( -24.74)
>DroEre_CAF1 11246 90 + 1
CACAU----AUUUG------AGUACACAAUAUCAUAGAGCAA-AGCAGUAAUAAAACGCACUUGUAGAGCAGCAAAUGCUUGGUGGUGGAUAUCUGCCAUU
.....----.....------................(((((.-.((.((......))))..((((......)))).)))))(((((..(....)..))))) ( -15.50)
>DroYak_CAF1 35927 87 + 1
CAUAU----CUCUA------AGUACAAUUUAUUA---AGGAG-AGCAGUAUAAAAACGAACUUGUAGAGCAGCAAAUGCUUGGUGGUGGAUAUCUGCCACU
....(----((((.------((((.....)))).---.))))-)((..(((((........)))))..))(((....))).(((((..(....)..))))) ( -19.00)
>DroPer_CAF1 17689 90 + 1
CAAAU----AUUAUCGUAGAAAUGGAUUGAGACUGAGAC-------AGGGGAAAAUCUCACUUGUAGAGCAGCAAAUGCUUUGUGGUCGAUAUCUGCCACU
.....----......(((((.((.((((.........((-------(((.((.....)).)))))((((((.....))))))..)))).)).))))).... ( -19.50)
>consensus
CAUAU_____U_U_______AGUGGACAGAAUCAUAGAGAAA_AACAGCAAUAAAACCCACUUGUAGAGCAGCAAAUGCUUGGUGGUGGAUAUCUGCCACU
..................................................................(((((.....))))).(((((((....))))))). (-13.74 = -13.77 +   0.03)

alignment

secondary structure

dotplot

Window 7

Location	16,381,541 – 16,381,653
Length	112
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	79.50
Mean single sequence MFE	-31.34
Consensus MFE	-22.84
Energy contribution	-23.82
Covariance contribution	0.97
Combinations/Pair	1.19
Mean z-score	-1.16
Structure conservation index	0.73
SVM decision value	0.17
SVM RNA-class probability	0.617013
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16381541 112 - 23771897
GACCAUUUGAUGGGCAUCACCCACGUCCUGAGGGGCGUGGAGUGGCAGAUAUCCACCACCAAGCAUUUGCUGCUCUACAAGUGGGUUUCAUUGAUGUUUUUUCUCUAUGAUU
...(((..((.(((((((((((((((((....))))((((((..((((((..............))))))..))))))..))))))......)))))))..))...)))... ( -40.94)
>DroSec_CAF1 11194 111 - 1
GACCACUUGAUGGGCAUUACCCAUGUCCUGAGGGGCGUGGAGUGGCAGAUAUCCACCACCAAGCAUUUGCUGCUCUACAAGUGGGUUUCAUUGUUGUA-UUUCUCUAUGAUU
..((((((.(((((.....)))))((((....))))((((((..((((((..............))))))..))))))))))))..............-............. ( -37.14)
>DroEre_CAF1 11265 111 - 1
GACCAUUUGAUGGGCAUUACCCACGUCUUGAGGGGCGUGGAAUGGCAGAUAUCCACCACCAAGCAUUUGCUGCUCUACAAGUGCGUUUUAUUACUGCU-UUGCUCUAUGAUA
...(((.....(((((....((((((((....))))))))...(((((.((...........(((((((........))))))).......)))))))-.))))).)))... ( -29.77)
>DroYak_CAF1 35946 108 - 1
GACCACUUGAUGGGCAUUACCCACGUCUUGAGGGGCGUGGAGUGGCAGAUAUCCACCACCAAGCAUUUGCUGCUCUACAAGUUCGUUUUUAUACUGCU-CUCCU---UAAUA
..........((((.....))))....((((((((.((((((..((((((..............))))))..)))))).(((..((......)).)))-)))))---))).. ( -30.54)
>DroAna_CAF1 33726 109 - 1
GACCAUCUGAUGGGCAUCACUCACGUCCUGAGAGGAGUGGAGUGGCAGAUAUCCACCACCAAGCACCUCCUGCUCUACAAGUAAGUAUUUCAAAAA---CCUCCCUAAACUG
..((((...)))).....(((.((.....(((((((((((.((((.......))))..))).....))))).))).....)).)))..........---............. ( -20.70)
>DroPer_CAF1 17714 105 - 1
GACCACCUGAUGGGCAUCACCCAUGUUCUGCGAGGAGUUGAGUGGCAGAUAUCGACCACAAAGCAUUUGCUGCUCUACAAGUGAGAUUUUCCCCU-------GUCUCAGUCU
(((..(((.(((((.....)))))(.....).))).((.(((..((((((..............))))))..))).))...((((((........-------))))))))). ( -28.94)
>consensus
GACCACUUGAUGGGCAUCACCCACGUCCUGAGGGGCGUGGAGUGGCAGAUAUCCACCACCAAGCAUUUGCUGCUCUACAAGUGAGUUUUAUUACUG_U_UUUCUCUAUGAUU
...((((((..((((.....((((((((....)))))))).((((..(....)..))))..(((....)))))))..))))))............................. (-22.84 = -23.82 +   0.97)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:10 2006