Locus 385

Sequence ID	2R_DroMel_CAF1
Location	2,363,660 – 2,363,780
Length	120
Max. P	0.995818

overview

Window 3

Location	2,363,660 – 2,363,780
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.25
Mean single sequence MFE	-38.26
Consensus MFE	-31.78
Energy contribution	-32.92
Covariance contribution	1.14
Combinations/Pair	1.03
Mean z-score	-1.54
Structure conservation index	0.83
SVM decision value	0.63
SVM RNA-class probability	0.804482
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2363660 120 + 20766785
UAACGGGGCAUUAGAGCUGCUUAGCAGCCACUGUGUGACCUCGGAGUCUGGCAUGUCCCCUCCAUGGCUGCUAAGUCCGCUUGAGCAUUCGACUAAGCCCAUUUAAUUGUCUUCAUUAGC
.....((((.((((....((((((((((((......(....)((((...((.....)).)))).))))))))))))..((....))......)))))))).................... ( -37.10)
>DroSec_CAF1 13181 120 + 1
UAACGGGGCAUUAGAGCUGCUUAGCAGCCACUGUGUGGCCUCGGAGUCUGGCAUGUCCCCUCCAUGGCUGCUAAGUCCGCUUGAGCAUUCGCCUAAGCCCAUUUAAUUGUCUUCAUUAGC
.....((((.((((.((((((((((.(((((...)))))...(((.(.(((((.(((........))))))))).))))).))))))...)))))))))).................... ( -40.10)
>DroSim_CAF1 13285 120 + 1
UAACGGGGCAUUAGAGCUGCUUAGCAGCCACUGUGUGGCCUCGGAGUCUGGCAUGUCCCCUCCAUGGCUGCUAAGUCCGCUUGAGCAUUCGCCUAAGCCCAUUUAAUUGUCUUCAUUAGC
.....((((.((((.((((((((((.(((((...)))))...(((.(.(((((.(((........))))))))).))))).))))))...)))))))))).................... ( -40.10)
>DroEre_CAF1 12943 109 + 1
UAAAGGGGCUUUAGAGCUGCUUAACAGCCACUGUGUGGCCUCGGAGUC----------UCUCCAUGGUAGCUAAGUCCGCUUGAGCAUUC-CCUAAGCCCAUUUAAUUGUCUUCAUUAGC
((((.((((((.(((((((((.....(((((...)))))...((((..----------.))))..)))))))......((....))....-.)))))))).))))............... ( -32.60)
>DroYak_CAF1 12668 120 + 1
UAAUGGGGCAUUAGAGCUGCUUAACAGCCACUGUGUGGCCUCGGAGUCUGGGAAGUCCUCGCCAUGGCUGCUAAGUCAGCUAGAGCAUUCGCCUAAGCCCAUUUAAUUGUCUUCAUUAAC
.....((((.(((((((((((((.((((((..(((.((((((((...)))))..).)).)))..)))))).)))).)))))...((....)))))))))).................... ( -41.40)
>consensus
UAACGGGGCAUUAGAGCUGCUUAGCAGCCACUGUGUGGCCUCGGAGUCUGGCAUGUCCCCUCCAUGGCUGCUAAGUCCGCUUGAGCAUUCGCCUAAGCCCAUUUAAUUGUCUUCAUUAGC
.....((((.((((.((.(((((((((((((.....).....((((...((.....)).)))).))))))))))))..((....))....)))))))))).................... (-31.78 = -32.92 +   1.14)

alignment

secondary structure

dotplot

Window 4

Location	2,363,660 – 2,363,780
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.25
Mean single sequence MFE	-40.70
Consensus MFE	-35.00
Energy contribution	-35.46
Covariance contribution	0.46
Combinations/Pair	1.03
Mean z-score	-2.24
Structure conservation index	0.86
SVM decision value	2.62
SVM RNA-class probability	0.995818
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2363660 120 - 20766785
GCUAAUGAAGACAAUUAAAUGGGCUUAGUCGAAUGCUCAAGCGGACUUAGCAGCCAUGGAGGGGACAUGCCAGACUCCGAGGUCACACAGUGGCUGCUAAGCAGCUCUAAUGCCCCGUUA
....................((((((((..((....)).(((.(.((((((((((((((((.((.....))...))))..(......).))))))))))))).))))))).))))..... ( -40.40)
>DroSec_CAF1 13181 120 - 1
GCUAAUGAAGACAAUUAAAUGGGCUUAGGCGAAUGCUCAAGCGGACUUAGCAGCCAUGGAGGGGACAUGCCAGACUCCGAGGCCACACAGUGGCUGCUAAGCAGCUCUAAUGCCCCGUUA
....................((((((((((...(((....)))(.((((((((((((((((.((.....))...))))..(......).))))))))))))).)).)))).))))..... ( -43.40)
>DroSim_CAF1 13285 120 - 1
GCUAAUGAAGACAAUUAAAUGGGCUUAGGCGAAUGCUCAAGCGGACUUAGCAGCCAUGGAGGGGACAUGCCAGACUCCGAGGCCACACAGUGGCUGCUAAGCAGCUCUAAUGCCCCGUUA
....................((((((((((...(((....)))(.((((((((((((((((.((.....))...))))..(......).))))))))))))).)).)))).))))..... ( -43.40)
>DroEre_CAF1 12943 109 - 1
GCUAAUGAAGACAAUUAAAUGGGCUUAGG-GAAUGCUCAAGCGGACUUAGCUACCAUGGAGA----------GACUCCGAGGCCACACAGUGGCUGUUAAGCAGCUCUAAAGCCCCUUUA
...............((((.(((((((((-(..(((....)))(.((((((.....(((((.----------..))))).((((((...)))))))))))))..)))).)))))).)))) ( -33.40)
>DroYak_CAF1 12668 120 - 1
GUUAAUGAAGACAAUUAAAUGGGCUUAGGCGAAUGCUCUAGCUGACUUAGCAGCCAUGGCGAGGACUUCCCAGACUCCGAGGCCACACAGUGGCUGUUAAGCAGCUCUAAUGCCCCAUUA
(((......)))........((((((((((....))...(((((.((((((((((((.(.(.((.((((.........)))))).).).))))))))))))))))))))).))))..... ( -42.90)
>consensus
GCUAAUGAAGACAAUUAAAUGGGCUUAGGCGAAUGCUCAAGCGGACUUAGCAGCCAUGGAGGGGACAUGCCAGACUCCGAGGCCACACAGUGGCUGCUAAGCAGCUCUAAUGCCCCGUUA
....................((((((((..((....)).(((.(.((((((((((((((((.((.....))...))))..(......).))))))))))))).))))))).))))..... (-35.00 = -35.46 +   0.46)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:06 2006