Locus 5602

Sequence ID	3L_DroMel_CAF1
Location	15,367,220 – 15,367,320
Length	100
Max. P	0.886367

overview

Window 6

Location	15,367,220 – 15,367,320
Length	100
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	77.58
Mean single sequence MFE	-17.15
Consensus MFE	-14.24
Energy contribution	-14.10
Covariance contribution	-0.14
Combinations/Pair	1.05
Mean z-score	-1.37
Structure conservation index	0.83
SVM decision value	0.94
SVM RNA-class probability	0.886367
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15367220 100 + 23771897
--GUCGCAAUGAAAAUUAUUUUCAUUUUCGCUUUGGUGCGCUCACUUGCCCAAAAGCUAAA---ACACACACACACAAGCACACACACAGCUCUUUCUC-GCAAUG-
--((.(((((((((.....)))))))...(((((((.(((......))))).)))))....---..............)))).......((........-))....- ( -16.40)
>DroGri_CAF1 97725 98 + 1
UUAGAGCAAUGAAAAUUAUUUUCAUU-UCGCUUUGGUGCGCUCGCUUGCCCAAAAGCUAAAUGCUCCU-------CGUGUUCCCACCCAACUCUUUAGCUGCCAUC-
...(((((((((((.....)))))).-..(((((((.(((......))))).)))))....)))))..-------.(((....)))....................- ( -19.30)
>DroSim_CAF1 101001 86 + 1
--GUCGCAAUGAAAAUUAUUUUCAUUUUCGCUUUGGUGCGCUCACUUGCCCAAAAGCUAAA---ACACAC--------------ACACAGCUCUUUCUC-GCAAUG-
--...(((((((((.....)))))))...(((((((.(((......))))).)))))....---......--------------...............-))....- ( -15.20)
>DroEre_CAF1 98744 84 + 1
--GUCGCAAUGAAAAUUAUUUUCAUUCUCGCUUUGGUGCGCUCACUUGCCCAAAAGCUAAA---ACAC----------------ACACAUCUCUUUCUC-GCAAUG-
--...(((((((((.....)))))))...(((((((.(((......))))).)))))....---....----------------...............-))....- ( -15.20)
>DroYak_CAF1 102051 86 + 1
--GUCGCAAUGAAAAUUAUUUUCAUUUUCGCUUUGGUGCGCUCACUUGCCCAAAAGCUAAA---ACACAC--------------ACACAUCUCUUUCUC-GCCAUG-
--...(((((((((.....)))))))...(((((((.(((......))))).)))))....---......--------------...............-))....- ( -14.30)
>DroMoj_CAF1 95656 95 + 1
UCAGCGUAAUGAAAAUGAUUUUCAUU-UCGCUUUGGUGCGCUCGCUUGCCCAAAAGCUAAAUACUCAU-------CGUA----GAGCCAACUCUUUAGUAGCUUUCC
..((((.(((((((.....)))))))-.))))((((.(((......)))))))((((((..(((....-------.)))----(((....))).....))))))... ( -22.50)
>consensus
__GUCGCAAUGAAAAUUAUUUUCAUUUUCGCUUUGGUGCGCUCACUUGCCCAAAAGCUAAA___ACAC________________ACACAACUCUUUCUC_GCAAUG_
.....(((((((((.....)))))))...(((((((.(((......))))).)))))...........................................))..... (-14.24 = -14.10 +  -0.14)

alignment

secondary structure

dotplot

Window 7

Location	15,367,220 – 15,367,320
Length	100
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	77.58
Mean single sequence MFE	-25.82
Consensus MFE	-13.02
Energy contribution	-13.02
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.14
Structure conservation index	0.50
SVM decision value	0.68
SVM RNA-class probability	0.820279
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15367220 100 - 23771897
-CAUUGC-GAGAAAGAGCUGUGUGUGUGCUUGUGUGUGUGUGU---UUUAGCUUUUGGGCAAGUGAGCGCACCAAAGCGAAAAUGAAAAUAAUUUUCAUUGCGAC--
-..((((-((......(((.((.(((((((..(.(((.((.((---....))...)).))).)..))))))))).)))((((((.......)))))).)))))).-- ( -30.80)
>DroGri_CAF1 97725 98 - 1
-GAUGGCAGCUAAAGAGUUGGGUGGGAACACG-------AGGAGCAUUUAGCUUUUGGGCAAGCGAGCGCACCAAAGCGA-AAUGAAAAUAAUUUUCAUUGCUCUAA
-.....(((((....))))).(((....))).-------.(((((.....(((((.((((........)).)))))))..-(((((((.....)))))))))))).. ( -28.80)
>DroSim_CAF1 101001 86 - 1
-CAUUGC-GAGAAAGAGCUGUGU--------------GUGUGU---UUUAGCUUUUGGGCAAGUGAGCGCACCAAAGCGAAAAUGAAAAUAAUUUUCAUUGCGAC--
-..((((-((......(((.((.--------------((((((---((..(((....)))....)))))))))).)))((((((.......)))))).)))))).-- ( -26.20)
>DroEre_CAF1 98744 84 - 1
-CAUUGC-GAGAAAGAGAUGUGU----------------GUGU---UUUAGCUUUUGGGCAAGUGAGCGCACCAAAGCGAGAAUGAAAAUAAUUUUCAUUGCGAC--
-..((((-((........((.((----------------((((---((..(((....)))....))))))))))....((((((.......)))))).)))))).-- ( -21.20)
>DroYak_CAF1 102051 86 - 1
-CAUGGC-GAGAAAGAGAUGUGU--------------GUGUGU---UUUAGCUUUUGGGCAAGUGAGCGCACCAAAGCGAAAAUGAAAAUAAUUUUCAUUGCGAC--
-....((-((......(...((.--------------((((((---((..(((....)))....))))))))))...)((((((.......)))))).))))...-- ( -20.60)
>DroMoj_CAF1 95656 95 - 1
GGAAAGCUACUAAAGAGUUGGCUC----UACG-------AUGAGUAUUUAGCUUUUGGGCAAGCGAGCGCACCAAAGCGA-AAUGAAAAUCAUUUUCAUUACGCUGA
((...(((....((((((((((((----....-------..))))...)))))))).)))..((....)).))..((((.-(((((((.....))))))).)))).. ( -27.30)
>consensus
_CAUUGC_GAGAAAGAGAUGUGU________________GUGU___UUUAGCUUUUGGGCAAGUGAGCGCACCAAAGCGAAAAUGAAAAUAAUUUUCAUUGCGAC__
..................................................(((((.((((........)).)))))))...(((((((.....)))))))....... (-13.02 = -13.02 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:25 2006