Locus 53

Sequence ID	3L_DroMel_CAF1
Location	182,767 – 182,868
Length	101
Max. P	0.564970

overview

Window 5

Location	182,767 – 182,868
Length	101
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	83.98
Mean single sequence MFE	-46.35
Consensus MFE	-32.26
Energy contribution	-32.23
Covariance contribution	-0.02
Combinations/Pair	1.30
Mean z-score	-2.02
Structure conservation index	0.70
SVM decision value	0.03
SVM RNA-class probability	0.550545
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 182767 101 + 23771897
ACAG-GCGCCCUCCCGCUCGCACAUAGCACGCUCGUU-UAAGGGCGCGCUUACUAUGCGCGUGAGUGCAAGCAGGAGGCAAGCAGGUGGCGUUCGUGUUGCAU
....-((..(((((.(((.((((....(((((((...-...))))((((.......))))))).)))).))).)))))...))..(..(((....)))..).. ( -43.60)
>DroPse_CAF1 2175 102 + 1
ACUC-ACGCCUUCUCGCUCCCACACAGCACGCUCGUUUUAAGGGCGCGCUUACUCUGUCUAUGAGUGCGAGCGGGAGGCAAGCAGGUGGCGCGCGUGUUGCAU
....-..((((((.(((((......(((.(((((.......))))).)))(((((.......))))).)))))))))))......(..(((....)))..).. ( -40.80)
>DroEre_CAF1 13589 101 + 1
ACAG-GCGCCCUCCCGCUCGCACGCAGCACGCUCGUU-UAAGGGCGCGCUUACUAUGCGCGUGAGUGCGAGUAAGAGGCAAGCAGGUGGCGUGCGUGUUGCAU
(((.-((((((.((.(((.((...(.((.(((((...-...))))).))(((((.(((((....)))))))))))..)).))).)).)).)))).)))..... ( -47.30)
>DroYak_CAF1 3532 101 + 1
ACAG-GCGCCCUCCUGCUCGCACGCAGCACGCUCGUU-UAAGGGCGCGCUUACUGUGCGCGUAAGUGCGAGCAGGAGGCAAGCAGGUGGCGUGCGUGUUGCAU
(((.-((((((((((((((((((...((..((((...-...))))((((.....))))))....))))))))))))))...((.....)))))).)))..... ( -55.60)
>DroAna_CAF1 12435 102 + 1
GCCGUGCGCCCUCUCGCUCCCUCUUGGCACGCUCGCC-UAAGGGCGCGCUCAUUGCGGCCGAAGGUGCGAGCAAGAGGCAAGCAGGUGGCGUGCGUGUCGGAU
((((..((((.(((.(((.(((((((.(.(((..(((-(..((.((((.....)))).))..))))))).))))))))..)))))).))))..)).))..... ( -50.00)
>DroPer_CAF1 6094 102 + 1
ACUC-ACGCCUUCUCGCUCCCACACAGCACGCUCGUUUUAAGGGCGCGCUUACUCUGUCUAUGAGUGCGAGCGGGAGGCAAGCAGGUGGCGCGCGUGUUGCAU
....-..((((((.(((((......(((.(((((.......))))).)))(((((.......))))).)))))))))))......(..(((....)))..).. ( -40.80)
>consensus
ACAG_GCGCCCUCCCGCUCCCACACAGCACGCUCGUU_UAAGGGCGCGCUUACUAUGCCCGUGAGUGCGAGCAGGAGGCAAGCAGGUGGCGUGCGUGUUGCAU
.....(((((((((.((((...........((((.......))))((((((((.......)))))))))))).)))))...((.....))..))))....... (-32.26 = -32.23 +  -0.02)

alignment

secondary structure

dotplot

Window 6

Location	182,767 – 182,868
Length	101
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	83.98
Mean single sequence MFE	-43.63
Consensus MFE	-29.97
Energy contribution	-30.61
Covariance contribution	0.64
Combinations/Pair	1.19
Mean z-score	-2.14
Structure conservation index	0.69
SVM decision value	0.06
SVM RNA-class probability	0.564970
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 182767 101 - 23771897
AUGCAACACGAACGCCACCUGCUUGCCUCCUGCUUGCACUCACGCGCAUAGUAAGCGCGCCCUUA-AACGAGCGUGCUAUGUGCGAGCGGGAGGGCGC-CUGU
..((.........((.....))...((((((((((((((....((.....)).(((((((.(...-...).)))))))..))))))))))))))))..-.... ( -41.90)
>DroPse_CAF1 2175 102 - 1
AUGCAACACGCGCGCCACCUGCUUGCCUCCCGCUCGCACUCAUAGACAGAGUAAGCGCGCCCUUAAAACGAGCGUGCUGUGUGGGAGCGAGAAGGCGU-GAGU
.......((.((((((.....(((((.((((((.(..((((.......)))).(((((((.(.......).)))))))).)))))))))))..)))))-).)) ( -43.00)
>DroEre_CAF1 13589 101 - 1
AUGCAACACGCACGCCACCUGCUUGCCUCUUACUCGCACUCACGCGCAUAGUAAGCGCGCCCUUA-AACGAGCGUGCUGCGUGCGAGCGGGAGGGCGC-CUGU
.(((.....)))((((.((((((((((...(((((((......)))...))))(((((((.(...-...).)))))))..).)))))))))..)))).-.... ( -41.10)
>DroYak_CAF1 3532 101 - 1
AUGCAACACGCACGCCACCUGCUUGCCUCCUGCUCGCACUUACGCGCACAGUAAGCGCGCCCUUA-AACGAGCGUGCUGCGUGCGAGCAGGAGGGCGC-CUGU
..(((...(((..((.....))...((((((((((((((.(((.......)))(((((((.(...-...).)))))))..))))))))))))))))).-.))) ( -47.70)
>DroAna_CAF1 12435 102 - 1
AUCCGACACGCACGCCACCUGCUUGCCUCUUGCUCGCACCUUCGGCCGCAAUGAGCGCGCCCUUA-GGCGAGCGUGCCAAGAGGGAGCGAGAGGGCGCACGGC
........((..((((..((((((.((((((((.(((.(((..((((((.....))).)))...)-))...))).).))))))))))).))..))))..)).. ( -45.10)
>DroPer_CAF1 6094 102 - 1
AUGCAACACGCGCGCCACCUGCUUGCCUCCCGCUCGCACUCAUAGACAGAGUAAGCGCGCCCUUAAAACGAGCGUGCUGUGUGGGAGCGAGAAGGCGU-GAGU
.......((.((((((.....(((((.((((((.(..((((.......)))).(((((((.(.......).)))))))).)))))))))))..)))))-).)) ( -43.00)
>consensus
AUGCAACACGCACGCCACCUGCUUGCCUCCUGCUCGCACUCACGCGCACAGUAAGCGCGCCCUUA_AACGAGCGUGCUGUGUGCGAGCGAGAGGGCGC_CUGU
........(((..((.....))...((((((((((.(((..............(((((((.(.......).)))))))..))).)))))))))))))...... (-29.97 = -30.61 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:08 2006