Locus 3448

Sequence ID	2R_DroMel_CAF1
Location	11,600,885 – 11,600,981
Length	96
Max. P	0.988862

overview

Window 0

Location	11,600,885 – 11,600,981
Length	96
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	77.89
Mean single sequence MFE	-35.28
Consensus MFE	-21.50
Energy contribution	-21.50
Covariance contribution	0.00
Combinations/Pair	1.11
Mean z-score	-2.23
Structure conservation index	0.61
SVM decision value	1.34
SVM RNA-class probability	0.943667
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11600885 96 + 20766785
-----------------GAUUGCGAUUGCGAGA-UUUCACCUUAGAGCUAAUCGUGCGGUGCGUUGUGGACUCUAUAUGAAAUUC------GCUUUCGCCUGCUGUUGUUGCAGAUGCAU
-----------------....((((..(((((.-(((((...((((((((..(((.....)))...))).)))))..))))))))------))..))))((((.......))))...... ( -33.10)
>DroSec_CAF1 7220 96 + 1
-----------------GAUUGCGAUUGCGAGA-UUUCACCUUAGAGCUAAUCGUGCGGUGCGUUGUGGACUUUAUAUGAAAUUC------GCUUUCGCCUGCUGUUGUUGCAGAGGCAU
-----------------......((..(((((.-(((((...((((((((..(((.....)))...))).)))))..))))))))------))..))((((.((((....)))))))).. ( -32.10)
>DroSim_CAF1 2746 113 + 1
AUUGCUAUUGCAAUUGCGAUUGCGAUUGCGAGA-UUUCACCUUAGAGCUAAUCGUGCGGUGCGUUGUGGACUCUAUAUGAAAUUC------GCUUUCGCCUGCUGUUGUUGCAGAUGCAU
..(((..(((((((.(((...((((..(((((.-(((((...((((((((..(((.....)))...))).)))))..))))))))------))..))))....))).)))))))..))). ( -40.10)
>DroAna_CAF1 21649 116 + 1
G----GGUUGCGAUUGCUAUUGCGAUUGCGAGACUUUCACCUUAGAGCUAACAAUACGGUGUGUGGUGGAUUCUACAUGAAAAUCGUUCUCGCUUUCGCCAGAAGUGGCUGCCGUUGCAC
.----...((((((.((((((((((..((((((..((((((.....(((........)))....))))))(((.....)))......))))))..))))....))))))....)))))). ( -35.80)
>consensus
_________________GAUUGCGAUUGCGAGA_UUUCACCUUAGAGCUAAUCGUGCGGUGCGUUGUGGACUCUAUAUGAAAUUC______GCUUUCGCCUGCUGUUGUUGCAGAUGCAU
.....................((((..((..((.(((((...((((((((..(((.....)))...))).)))))..))))).))......))..))))((((.......))))...... (-21.50 = -21.50 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	11,600,885 – 11,600,981
Length	96
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	77.89
Mean single sequence MFE	-28.43
Consensus MFE	-18.34
Energy contribution	-18.34
Covariance contribution	-0.00
Combinations/Pair	1.07
Mean z-score	-2.45
Structure conservation index	0.65
SVM decision value	2.14
SVM RNA-class probability	0.988862
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11600885 96 - 20766785
AUGCAUCUGCAACAACAGCAGGCGAAAGC------GAAUUUCAUAUAGAGUCCACAACGCACCGCACGAUUAGCUCUAAGGUGAAA-UCUCGCAAUCGCAAUC-----------------
......((((.......))))((((..((------(((((((((.((((((.......((...)).......))))))..))))))-).))))..))))....----------------- ( -28.04)
>DroSec_CAF1 7220 96 - 1
AUGCCUCUGCAACAACAGCAGGCGAAAGC------GAAUUUCAUAUAAAGUCCACAACGCACCGCACGAUUAGCUCUAAGGUGAAA-UCUCGCAAUCGCAAUC-----------------
......((((.......))))((((..((------(((((((((....(((.......((...)).......))).....))))))-).))))..))))....----------------- ( -22.14)
>DroSim_CAF1 2746 113 - 1
AUGCAUCUGCAACAACAGCAGGCGAAAGC------GAAUUUCAUAUAGAGUCCACAACGCACCGCACGAUUAGCUCUAAGGUGAAA-UCUCGCAAUCGCAAUCGCAAUUGCAAUAGCAAU
.(((..((((.......))))((((..((------(((((((((.((((((.......((...)).......))))))..))))))-).))))..))))....)))(((((....))))) ( -34.74)
>DroAna_CAF1 21649 116 - 1
GUGCAACGGCAGCCACUUCUGGCGAAAGCGAGAACGAUUUUCAUGUAGAAUCCACCACACACCGUAUUGUUAGCUCUAAGGUGAAAGUCUCGCAAUCGCAAUAGCAAUCGCAACC----C
.(((....((.((((....))))((..((((((..((((((.....)))))).......((((.((..(....)..)).))))....))))))..))))....))).........----. ( -28.80)
>consensus
AUGCAUCUGCAACAACAGCAGGCGAAAGC______GAAUUUCAUAUAGAGUCCACAACGCACCGCACGAUUAGCUCUAAGGUGAAA_UCUCGCAAUCGCAAUC_________________
.(((..((((.......))))((((..........((.((((((.((((((.......((...)).......))))))..)))))).))))))....))).................... (-18.34 = -18.34 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:51 2006