Locus 6891

Sequence ID	X_DroMel_CAF1
Location	17,241,141 – 17,241,242
Length	101
Max. P	0.919510

overview

Window 9

Location	17,241,141 – 17,241,242
Length	101
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	76.92
Mean single sequence MFE	-27.12
Consensus MFE	-16.02
Energy contribution	-17.22
Covariance contribution	1.20
Combinations/Pair	1.29
Mean z-score	-2.00
Structure conservation index	0.59
SVM decision value	1.13
SVM RNA-class probability	0.919510
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17241141 101 + 22224390
-----------------GCGGGGGAUCCG-GGGAAUCGCCUGGCAAAUUGGCCGGCGCAGAAAUGUGUCGGAAGUCUUUAGUAAAAGUUAAAUAGAAAGCAUAUAGGAGAUUUAUAUGC
-----------------((..((((((((-((......)))))........((((((((....))))))))..)))))..))................((((((((.....)))))))) ( -31.00)
>DroVir_CAF1 104782 91 + 1
--------AGGGG-UA------G---CCG------AC----GGCAUCGGCGUCGGCUCAGAAAUGUGUCGGAAGUCUUUAGUAAAAGUUAAAUAGAAAGCAUAUAGAAGAUUUAUAUGC
--------(((((-..------(---(((------(.----....))))).(((((.((....)).)))))...)))))...................(((((((((...))))))))) ( -23.00)
>DroGri_CAF1 110912 103 + 1
--------AGGGGGUAAAUUGAGCA-CCG---UAUUC----GCCAUAGUCGUCGACUCUGAAAUGUGUCGGAAGUCUUUAGUAAAAGUUAAAUAGAAAGCAUAUAAAAGAUUUAUAUGC
--------....((..(((((....-.))---.))).----.)).........((((((((......)))).))))......................((((((((.....)))))))) ( -17.00)
>DroSim_CAF1 89196 101 + 1
-----------------ACGGGGGAUCCG-GGGAAUCGCCUGGCAAAUUGGCCGGCGCAGAAAUGUGUCGGAAGUCUUUAGUAAAAGUUAAAUAGAAAGCAUAUAGGAGAUUUAUAUGC
-----------------.((((.((((..-..).))).))))(((......((((((((....))))))))(((((((..(((...(((........))).)))..)))))))...))) ( -31.30)
>DroEre_CAF1 93253 99 + 1
G--------------------GGAAUCCGGGGGAAUCGCCUGGCAAAUUGGCCGGCGCAGAAAUGUGUCGGAAGUCUUUAGUAAAAGCUAAAUAGAAAGCAUAUGGGAGAUUUAUAUGC
.--------------------.....(((((.(...).)))))........((((((((....))))))))(((((((..(((...(((........))).)))..)))))))...... ( -29.40)
>DroYak_CAF1 95985 117 + 1
GGGGUAUACGGGG-UAUACGGGGAAUACG-GGGAAUCGCCUGGCAAAUUGGCCGGCGCAGAAAUGUGUCGGAAGUGUUUAGUAAAAGUUAAAUAGAAAGCAUAUGGAAGAUUUAUAUGC
...((((((...)-)))))...(((((((-((......)))..........((((((((....))))))))..))))))...................(((((((((...))))))))) ( -31.00)
>consensus
_________________ACGGGGAAUCCG_GGGAAUCGCCUGGCAAAUUGGCCGGCGCAGAAAUGUGUCGGAAGUCUUUAGUAAAAGUUAAAUAGAAAGCAUAUAGAAGAUUUAUAUGC
...................................................((((((((....))))))))...........................(((((((((...))))))))) (-16.02 = -17.22 +   1.20)

alignment

secondary structure

dotplot

Window 0

Location	17,241,141 – 17,241,242
Length	101
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	76.92
Mean single sequence MFE	-19.24
Consensus MFE	-8.49
Energy contribution	-10.99
Covariance contribution	2.50
Combinations/Pair	1.00
Mean z-score	-2.05
Structure conservation index	0.44
SVM decision value	0.10
SVM RNA-class probability	0.585106
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17241141 101 - 22224390
GCAUAUAAAUCUCCUAUAUGCUUUCUAUUUAACUUUUACUAAAGACUUCCGACACAUUUCUGCGCCGGCCAAUUUGCCAGGCGAUUCCC-CGGAUCCCCCGC-----------------
(((((((.......)))))))...........((((....))))...((((.((......))(((((((......))).))))......-))))........----------------- ( -20.90)
>DroVir_CAF1 104782 91 - 1
GCAUAUAAAUCUUCUAUAUGCUUUCUAUUUAACUUUUACUAAAGACUUCCGACACAUUUCUGAGCCGACGCCGAUGCC----GU------CGG---C------UA-CCCCU--------
(((((((.......)))))))...........((((....))))..................((((((((.......)----))------)))---)------).-.....-------- ( -20.40)
>DroGri_CAF1 110912 103 - 1
GCAUAUAAAUCUUUUAUAUGCUUUCUAUUUAACUUUUACUAAAGACUUCCGACACAUUUCAGAGUCGACGACUAUGGC----GAAUA---CGG-UGCUCAAUUUACCCCCU--------
((((((((.....))))))))...........((((....))))......(((((...(((.((((...)))).)))(----(....---)))-)).))............-------- ( -14.50)
>DroSim_CAF1 89196 101 - 1
GCAUAUAAAUCUCCUAUAUGCUUUCUAUUUAACUUUUACUAAAGACUUCCGACACAUUUCUGCGCCGGCCAAUUUGCCAGGCGAUUCCC-CGGAUCCCCCGU-----------------
(((((((.......)))))))...........((((....))))...((((.((......))(((((((......))).))))......-))))........----------------- ( -20.90)
>DroEre_CAF1 93253 99 - 1
GCAUAUAAAUCUCCCAUAUGCUUUCUAUUUAGCUUUUACUAAAGACUUCCGACACAUUUCUGCGCCGGCCAAUUUGCCAGGCGAUUCCCCCGGAUUCC--------------------C
((((((.........))))))......(((((......)))))((..((((...........(((((((......))).)))).......)))).)).--------------------. ( -20.07)
>DroYak_CAF1 95985 117 - 1
GCAUAUAAAUCUUCCAUAUGCUUUCUAUUUAACUUUUACUAAACACUUCCGACACAUUUCUGCGCCGGCCAAUUUGCCAGGCGAUUCCC-CGUAUUCCCCGUAUA-CCCCGUAUACCCC
((((((.........)))))).........................................(((((((......))).))))......-..........(((((-(...))))))... ( -18.70)
>consensus
GCAUAUAAAUCUCCUAUAUGCUUUCUAUUUAACUUUUACUAAAGACUUCCGACACAUUUCUGCGCCGGCCAAUUUGCCAGGCGAUUCCC_CGGAUCCCCCGU_________________
(((((((.......)))))))..........................((((...........(((((((......))).)))).......))))......................... ( -8.49 = -10.99 +   2.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:16 2006