Locus 5581

Sequence ID	3R_DroMel_CAF1
Location	14,754,867 – 14,754,983
Length	116
Max. P	0.895863

overview

Window 5

Location	14,754,867 – 14,754,983
Length	116
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	88.76
Mean single sequence MFE	-37.88
Consensus MFE	-25.42
Energy contribution	-25.10
Covariance contribution	-0.32
Combinations/Pair	1.12
Mean z-score	-2.60
Structure conservation index	0.67
SVM decision value	0.40
SVM RNA-class probability	0.722820
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14754867 116 + 27905053
UUGCAAUCUCGAUAGGCUUGUCGCAGGGACUUCCCUCCCUAUAUCCGCCGAAAAGCGGAUGCUUGAUGUGCAUUAAGCCCGCUAAUUACAAGUGGACGUAAUGUGUGCAUUUGCAA
.(((((......(((((.......(((((......)))))..((((((......)))))))))))(((..(((...(.(((((.......))))).).....)))..)))))))). ( -36.90)
>DroSec_CAF1 13866 114 + 1
UUGCAAUCUCGAUAGGUUUGUCGCAGGGACUUCCCUCUCUAUAUCCGCCGAAAAGCGGAUGCUUGAUGUGCAUUAAGCCCGCUAAUUACAAGUGGACGUAAUG--UGCAUUUGCAA
.((((.....((((....))))((((((....))))......((((((......))))))))..((((..(((((.(.(((((.......))))).).)))))--..)))))))). ( -37.30)
>DroSim_CAF1 15023 114 + 1
UUGCAAUCUCGAUAGGCUUGUCGCAGGGACUUCCCUCUCUAUAUCCGCCGAAAAGCGGAUGCUUGAUAUGCAUUAAGCCCGCUAAUUACAAGUGGACGUAAUG--UGCAUUUGCAA
.(((((........((((((..((((((....)))......(((((((......))))))).......)))..)))))).((..(((((........))))).--.))..))))). ( -35.50)
>DroEre_CAF1 13993 114 + 1
UUACAGUAUCGCCAGAUUUGGCAGAAGGAGUUCCUUCCCUAUUUCCGCCUACAAGCGGAUGCUUUAUGUGCAUUAAGCACGCUAAUUACAAGUGGGCGUAAUG--UGCAUUUGCAA
..........(((......))).(((((....)))))......(((((......)))))(((...(((..(((((.((.((((.......)))).)).)))))--..)))..))). ( -39.20)
>DroYak_CAF1 13486 114 + 1
UUGCAGUAUCGCUAGGUUUGGCAGAAGGACUUCCCUCCCUAUUUCCGCCGAAAAGCGAAUGCUUGAUGUGCAUUAAGCGCGCUAAUUACAAGUGAGCGUAAUG--UGCAUUUGCAU
.((((((((((((...((((((.((((((......)))....))).)))))).)))).))))..((((..(((((.((.((((.......)))).)).)))))--..)))))))). ( -40.50)
>consensus
UUGCAAUCUCGAUAGGUUUGUCGCAGGGACUUCCCUCCCUAUAUCCGCCGAAAAGCGGAUGCUUGAUGUGCAUUAAGCCCGCUAAUUACAAGUGGACGUAAUG__UGCAUUUGCAA
.(((((....((((....))))..((((....)))).......(((((......))))).(((((((....)))))))..((..(((((........)))))....))..))))). (-25.42 = -25.10 +  -0.32)

alignment

secondary structure

dotplot

Window 6

Location	14,754,867 – 14,754,983
Length	116
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	88.76
Mean single sequence MFE	-35.00
Consensus MFE	-26.56
Energy contribution	-25.28
Covariance contribution	-1.28
Combinations/Pair	1.23
Mean z-score	-2.14
Structure conservation index	0.76
SVM decision value	0.99
SVM RNA-class probability	0.895863
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14754867 116 - 27905053
UUGCAAAUGCACACAUUACGUCCACUUGUAAUUAGCGGGCUUAAUGCACAUCAAGCAUCCGCUUUUCGGCGGAUAUAGGGAGGGAAGUCCCUGCGACAAGCCUAUCGAGAUUGCAA
.(((((..((....((((((......))))))..))((((((..(((.........(((((((....)))))))..(((((......))))))))..)))))).......))))). ( -36.40)
>DroSec_CAF1 13866 114 - 1
UUGCAAAUGCA--CAUUACGUCCACUUGUAAUUAGCGGGCUUAAUGCACAUCAAGCAUCCGCUUUUCGGCGGAUAUAGAGAGGGAAGUCCCUGCGACAAACCUAUCGAGAUUGCAA
.((((((((..--(((((.((((.((.......)).)))).)))))..)))...(((((((((....)))))))......((((....))))))................))))). ( -34.00)
>DroSim_CAF1 15023 114 - 1
UUGCAAAUGCA--CAUUACGUCCACUUGUAAUUAGCGGGCUUAAUGCAUAUCAAGCAUCCGCUUUUCGGCGGAUAUAGAGAGGGAAGUCCCUGCGACAAGCCUAUCGAGAUUGCAA
.(((((..((.--.((((((......))))))..))((((((..(((.........(((((((....)))))))......((((....)))))))..)))))).......))))). ( -37.00)
>DroEre_CAF1 13993 114 - 1
UUGCAAAUGCA--CAUUACGCCCACUUGUAAUUAGCGUGCUUAAUGCACAUAAAGCAUCCGCUUGUAGGCGGAAAUAGGGAAGGAACUCCUUCUGCCAAAUCUGGCGAUACUGUAA
.(((....((.--.((((((......))))))..))((((.....)))).....)))((((((....)))))).((((((((((....))))))((((....))))....)))).. ( -38.10)
>DroYak_CAF1 13486 114 - 1
AUGCAAAUGCA--CAUUACGCUCACUUGUAAUUAGCGCGCUUAAUGCACAUCAAGCAUUCGCUUUUCGGCGGAAAUAGGGAGGGAAGUCCUUCUGCCAAACCUAGCGAUACUGCAA
.((((.((((.--.....((((...........)))).((.....)).......))))(((((....((((((....((((......))))))))))......)))))...)))). ( -29.50)
>consensus
UUGCAAAUGCA__CAUUACGUCCACUUGUAAUUAGCGGGCUUAAUGCACAUCAAGCAUCCGCUUUUCGGCGGAUAUAGGGAGGGAAGUCCCUGCGACAAACCUAUCGAGAUUGCAA
.(((....)))..(((((.((((.((.......)).)))).)))))........(((((((((....)))))).......((((....)))).(((........)))....))).. (-26.56 = -25.28 +  -1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:36 2006