Locus 6972

Sequence ID	X_DroMel_CAF1
Location	17,460,662 – 17,460,837
Length	175
Max. P	0.709979

overview

Window 7

Location	17,460,662 – 17,460,772
Length	110
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	82.96
Mean single sequence MFE	-28.22
Consensus MFE	-19.50
Energy contribution	-20.22
Covariance contribution	0.72
Combinations/Pair	1.09
Mean z-score	-1.84
Structure conservation index	0.69
SVM decision value	0.37
SVM RNA-class probability	0.709979
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17460662 110 + 22224390
AUUAGGUAAAUGACUACCUAGCAUAUCUAAUCAUAGUUGGAUGUAGCCUAGCUAUUUUAAGCGGAUCAUUGGUCGACAUCUCUGCUCGCAAAUCAAGCGAGACAAGCUAA----
..((((((......))))))(((((((((((....))))))))).)).(((((.......(((((....((.....))..)))))((((.......))))....))))).---- ( -29.70)
>DroSec_CAF1 2942 110 + 1
AUUAGAUAAAUGACUACCUGGCAUAUCUAAUCAUAGUUGGAUAUGGACUAGCUAUUUUAAGCGGAUCAUUGGUCGACAUCUCUGCUCGCAAAUCAAGCGAGACAAGCAAG----
....(((.(((((...((...((((((((((....)))))))))).....(((......))))).))))).)))........(((((((.......))))).))......---- ( -27.30)
>DroSim_CAF1 3044 88 + 1
----------------------AUAUCUAAUCAUAGUUGGAUAUGGUCUAGCUAUUUUAAGCGGAUCAUUGGUCGACAUCUCUGCUCGCAAAUCAAGCGAGACAAGCAAG----
----------------------.............(((((..(((((((.(((......))))))))))...))))).....(((((((.......))))).))......---- ( -23.20)
>DroEre_CAF1 10958 111 + 1
-CUAGAUAAAUGACUGCCUGGCAUAUCUAAUCAUAGUUGGAUGUGGUCUAGCUAUUUUAAGCGGAUCUUUGGCCGACAUCUCUGCUCGCAAAUCAUGCGAGACAAACUGGCA--
-..............((((((((((((((((....)))))))))(((((.(((......))))))))....)))).......((((((((.....)))))).))....))).-- ( -33.00)
>DroYak_CAF1 3021 114 + 1
ACUAGAUAAAUAACUACCUGGCAUAUCUAAUCAUAGUUGGAUGUGCUCUAGCUAUUUUAAGCGGAUCUUUGGCCGACAUCUCUGCUCGCAAAUCAAGCGAGGCAAACUGACAAG
...(((((((((.(((...((((((((((((....)))))))))))).))).)))))...((((........))).))))).(((((((.......)))).))).......... ( -27.90)
>consensus
ACUAGAUAAAUGACUACCUGGCAUAUCUAAUCAUAGUUGGAUGUGGUCUAGCUAUUUUAAGCGGAUCAUUGGUCGACAUCUCUGCUCGCAAAUCAAGCGAGACAAGCUAG____
...................................(((((..(((((((.(((......))))))))))...))))).....(((((((.......))))).)).......... (-19.50 = -20.22 +   0.72)

alignment

secondary structure

dotplot

Window 8

Location	17,460,738 – 17,460,837
Length	99
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	86.77
Mean single sequence MFE	-25.60
Consensus MFE	-17.50
Energy contribution	-17.50
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.73
Structure conservation index	0.68
SVM decision value	-0.04
SVM RNA-class probability	0.511376
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17460738 99 + 22224390
CAUCUCUGCUCGCAAAUCAAGCGAGACAAGCUAA-----------GCAUACACACACACACACAUGGAGGCCACUUAACACCUUACAGGUGCACGAAUGCGCAGGGGACA
..(((((((((((.......))))..........-----------((((.(...............(((....)))..((((.....))))...).)))))))))))... ( -24.60)
>DroSec_CAF1 3018 97 + 1
CAUCUCUGCUCGCAAAUCAAGCGAGACAAGCAAG-----------GCAUACACAC--ACACACAUGGAGGCCACUUAACACCUUACAGGUGCACGAAUGCGCAGGGGACA
..(((((((((((.......)))).....(((.(-----------((...((...--.......))...)))......((((.....))))......))))))))))... ( -26.90)
>DroSim_CAF1 3098 97 + 1
CAUCUCUGCUCGCAAAUCAAGCGAGACAAGCAAG-----------GCAUACACAC--ACACACAUGGAGGCCACUUAACACCUUACAGGUGCACGAAUGCGCAGGGGACA
..(((((((((((.......)))).....(((.(-----------((...((...--.......))...)))......((((.....))))......))))))))))... ( -26.90)
>DroEre_CAF1 11033 94 + 1
CAUCUCUGCUCGCAAAUCAUGCGAGACAAACUGGCA--------------CACAC--ACACACAUAGAUGCCACUUAACACCUCACAGGUGCACGAAUGCGCUGGGGACA
......((((((((.....)))))).))...(((((--------------(....--.........).))))).......(((((...(((((....))))))))))... ( -24.12)
>DroYak_CAF1 3097 108 + 1
CAUCUCUGCUCGCAAAUCAAGCGAGGCAAACUGACAAGCAGACACACAUGCACAC--ACACACAUGGAGGCCACUUAACACCUUACAGGUGCACGAAUGCGAUGGGGACA
..((((((.(((((..........(((...(((.....))).....((((.....--.....))))...)))......((((.....))))......))))))))))).. ( -25.50)
>consensus
CAUCUCUGCUCGCAAAUCAAGCGAGACAAGCUAG___________GCAUACACAC__ACACACAUGGAGGCCACUUAACACCUUACAGGUGCACGAAUGCGCAGGGGACA
..(((((.(((((.......)))))............................................((.......((((.....)))).......))...))))).. (-17.50 = -17.50 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:02 2006