Locus 3777

Sequence ID	3L_DroMel_CAF1
Location	10,911,615 – 10,911,709
Length	94
Max. P	0.986458

overview

Window 9

Location	10,911,615 – 10,911,709
Length	94
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.94
Mean single sequence MFE	-29.77
Consensus MFE	-19.87
Energy contribution	-20.37
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.57
Structure conservation index	0.67
SVM decision value	2.04
SVM RNA-class probability	0.986458
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10911615 94 + 23771897
---------------U--UCAUCCUUUGCCGCUUUUACGGCACGA--------GCAACAAAUUGCCCAUUUUGCAGGC-CUCGUACGUGCGGCAAUUUUCGAAUGACAUUUUCAUUAGCA
---------------.--.......(((((((....(((..((((--------((..((((........))))...).-))))).))))))))))......(((((.....))))).... ( -23.50)
>DroVir_CAF1 34428 92 + 1
------------------GCUGCUGCCGUUGCACACGCGGCACGA--------GCAACAAAUUGCCCAUUUUGCUGGC-CGCGUACGUGCCGCAAUU-UCAAAUGACAUUUUCAUUAGCA
------------------...(((...((.(((((((((((.(.(--------((((.............))))))))-)))))..)))).))....-...(((((.....)))))))). ( -29.22)
>DroPse_CAF1 47031 97 + 1
-----------------------UUUUAUUCCUUUUGCGGCACGAGGCAGCCAGCAACAAAUUGCCCAUUUUGCAGCCUCUGGUACGUGCCGCAAUUUUCAAAUGACAUUUUCAUUAGCA
-----------------------...........((((((((((.(.(((...((..((((........))))..))..))).).))))))))))......(((((.....))))).... ( -27.60)
>DroGri_CAF1 31499 108 + 1
GAACUAUGUGGCUGGU--GUUGCUGUUGCUGCACUCGCGGCACGA--------GCAACAAAUUGCCCAUUUUGCUGGU-CGCGUACGUGCCGCAAUU-UCAAAUGACAUUUUCAUUAGCA
(((..(((.(((...(--((((((..((((((....))))))..)--------))))))....)))))).((((.((.-(((....))))))))).)-)).(((((.....))))).... ( -37.00)
>DroMoj_CAF1 42618 96 + 1
-AAC-----------C--GCAGCUGCUGUUGCACUCGCGGCACGA--------GCAACAAAUUGCCCAUUUUGCUGGC-CGCGUACGUGCCGCAAUU-UCAAAUGACAUUUUCAUUAGCA
-...-----------.--(((((....)))))....((((((((.--------((((....))))(((......))).-......))))))))....-...(((((.....))))).... ( -29.70)
>DroAna_CAF1 35618 96 + 1
---------------UUGUCAUCUUUGGCGGCUUUUGCGGCACGA--------GCAACAAAUUGCCCAUUUUGCAAAC-CGUGUACGUGCCGCAAUUUUCAAAUGACAUUUUCAUUAGCA
---------------.(((((....)))))(((.((((((((((.--------(((.....((((.......))))..-..))).))))))))))......(((((.....)))))))). ( -31.60)
>consensus
_______________U__GCAGCUGUUGCUGCACUCGCGGCACGA________GCAACAAAUUGCCCAUUUUGCAGGC_CGCGUACGUGCCGCAAUU_UCAAAUGACAUUUUCAUUAGCA
..............................((....((((((((.........((((....))))......(((........)))))))))))........(((((.....))))).)). (-19.87 = -20.37 +   0.50)

alignment

secondary structure

dotplot

Window 0

Location	10,911,615 – 10,911,709
Length	94
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.94
Mean single sequence MFE	-31.97
Consensus MFE	-20.33
Energy contribution	-20.50
Covariance contribution	0.17
Combinations/Pair	1.13
Mean z-score	-2.52
Structure conservation index	0.64
SVM decision value	1.98
SVM RNA-class probability	0.984756
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10911615 94 - 23771897
UGCUAAUGAAAAUGUCAUUCGAAAAUUGCCGCACGUACGAG-GCCUGCAAAAUGGGCAAUUUGUUGC--------UCGUGCCGUAAAAGCGGCAAAGGAUGA--A---------------
..............((((((.....(((((((...(((..(-((.......((((((((....))))--------))))))))))...))))))).))))))--.--------------- ( -29.31)
>DroVir_CAF1 34428 92 - 1
UGCUAAUGAAAAUGUCAUUUGA-AAUUGCGGCACGUACGCG-GCCAGCAAAAUGGGCAAUUUGUUGC--------UCGUGCCGCGUGUGCAACGGCAGCAGC------------------
(((((((((.....)))))...-..(((..((((..(((((-((.......((((((((....))))--------)))))))))))))))..))).))))..------------------ ( -31.91)
>DroPse_CAF1 47031 97 - 1
UGCUAAUGAAAAUGUCAUUUGAAAAUUGCGGCACGUACCAGAGGCUGCAAAAUGGGCAAUUUGUUGCUGGCUGCCUCGUGCCGCAAAAGGAAUAAAA-----------------------
..(.(((((.....))))).)....((((((((((...(((.(((.(((((........))))).)))..)))...))))))))))...........----------------------- ( -31.40)
>DroGri_CAF1 31499 108 - 1
UGCUAAUGAAAAUGUCAUUUGA-AAUUGCGGCACGUACGCG-ACCAGCAAAAUGGGCAAUUUGUUGC--------UCGUGCCGCGAGUGCAGCAACAGCAAC--ACCAGCCACAUAGUUC
(((((((((.....)))))((.-..(((((((((....((.-....)).....((((((....))))--------)))))))))))...)).....))))..--................ ( -32.50)
>DroMoj_CAF1 42618 96 - 1
UGCUAAUGAAAAUGUCAUUUGA-AAUUGCGGCACGUACGCG-GCCAGCAAAAUGGGCAAUUUGUUGC--------UCGUGCCGCGAGUGCAACAGCAGCUGC--G-----------GUU-
..(.(((((.....))))).).-(((((((((.....((((-((.......((((((((....))))--------))))))))))..(((....))))))))--)-----------)))- ( -34.11)
>DroAna_CAF1 35618 96 - 1
UGCUAAUGAAAAUGUCAUUUGAAAAUUGCGGCACGUACACG-GUUUGCAAAAUGGGCAAUUUGUUGC--------UCGUGCCGCAAAAGCCGCCAAAGAUGACAA---------------
............((((((((.......(((((.((....))-.(((((...((((((((....))))--------))))...))))).)))))...)))))))).--------------- ( -32.60)
>consensus
UGCUAAUGAAAAUGUCAUUUGA_AAUUGCGGCACGUACGCG_GCCAGCAAAAUGGGCAAUUUGUUGC________UCGUGCCGCAAAAGCAACAAAAGCUGC__A_______________
(((.(((((.....)))))......((((((((((...........(((((........)))))............))))))))))..)))............................. (-20.33 = -20.50 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:23 2006