Locus 3260

Sequence ID	3L_DroMel_CAF1
Location	9,545,186 – 9,545,299
Length	113
Max. P	0.959210

overview

Window 6

Location	9,545,186 – 9,545,299
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	79.77
Mean single sequence MFE	-18.60
Consensus MFE	-6.74
Energy contribution	-7.38
Covariance contribution	0.64
Combinations/Pair	1.07
Mean z-score	-2.72
Structure conservation index	0.36
SVM decision value	1.50
SVM RNA-class probability	0.959210
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9545186 113 + 23771897
UAAUUUAAAACACACUUCAUUUUAUCAUCGCUUUAAUUAAAUAACUCAAAAUACCGAGCUAUUAAACCAAGGCCAAGGCAAACUUUAUUUAGCCUGCACUCAAAAUGAAAAAC
...............((((((((......(((((..((.((((.(((........))).)))).))..)))))..((((............))))......)))))))).... ( -17.00)
>DroSec_CAF1 54181 113 + 1
UAAUUUAAAACACACUUCACUUUAUCAUUGCUUCAAUUAAAGAACUCAAAAUCCCAGGCUAUUAAACCAAGGCCAAGGCAGACUUUAUUUAGCCUGCACACAAAAUGAAAAAC
...............(((((((((..((((...)))))))))............(((((((.((((.....((....))....))))..))))))).........)))).... ( -16.50)
>DroSim_CAF1 56282 113 + 1
UAAUUUAAAACACACUUCAUUUUAUCAUUGCUUCACUUAAAUAACUCAAAAUACCAGGCUAUUAAACCAAGGCCAAGGCAGACUUUAUUUAGCCUGCACUCAAAAUGAAAAAC
...............((((((((.................................((((..........))))...((((.((......)).))))....)))))))).... ( -16.60)
>DroEre_CAF1 54505 93 + 1
UGCUAUA------UUU--------UCAUUGCUUCACUUAAAUAACUGGAA------AGCUAUUAAACCAAGGCCAAUGCAGGCUUUAUUUAGCCUGCACUCAAAAUGAAUAAC
.......------..(--------(((((((((......((((.((....------)).))))......))))...((((((((......)))))))).....)))))).... ( -22.20)
>DroYak_CAF1 57644 105 + 1
UACUUUAAAACACCAU--------UCCUUGCUGCACUUAAAUAAGUGAAAAUGCCAAGCUAUUCAGUCAAGGCCAAGGCAGACUUUAUUUAGCAUGCACUUAAAAUGGACAAC
............((((--------((((((((((((((....))))).....((...))....))).)))))..((((((..((......))..))).)))..)))))..... ( -20.70)
>consensus
UAAUUUAAAACACACUUCA_UUUAUCAUUGCUUCACUUAAAUAACUCAAAAUACCAAGCUAUUAAACCAAGGCCAAGGCAGACUUUAUUUAGCCUGCACUCAAAAUGAAAAAC
........................(((((............................(((..........)))....((((.((......)).))))......)))))..... ( -6.74 =  -7.38 +   0.64)

alignment

secondary structure

dotplot

Window 7

Location	9,545,186 – 9,545,299
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	79.77
Mean single sequence MFE	-27.34
Consensus MFE	-14.64
Energy contribution	-15.16
Covariance contribution	0.52
Combinations/Pair	1.24
Mean z-score	-2.38
Structure conservation index	0.54
SVM decision value	1.19
SVM RNA-class probability	0.928875
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9545186 113 - 23771897
GUUUUUCAUUUUGAGUGCAGGCUAAAUAAAGUUUGCCUUGGCCUUGGUUUAAUAGCUCGGUAUUUUGAGUUAUUUAAUUAAAGCGAUGAUAAAAUGAAGUGUGUUUUAAAUUA
...((((((((((((.(((((((......)))))))))).((.((((((.((((((((((....)))))))))).)))))).))......))))))))).............. ( -30.70)
>DroSec_CAF1 54181 113 - 1
GUUUUUCAUUUUGUGUGCAGGCUAAAUAAAGUCUGCCUUGGCCUUGGUUUAAUAGCCUGGGAUUUUGAGUUCUUUAAUUGAAGCAAUGAUAAAGUGAAGUGUGUUUUAAAUUA
...(((((((((((..(((((((......)))))))((..((((.((((....)))).)))...)..))...................))))))))))).............. ( -26.20)
>DroSim_CAF1 56282 113 - 1
GUUUUUCAUUUUGAGUGCAGGCUAAAUAAAGUCUGCCUUGGCCUUGGUUUAAUAGCCUGGUAUUUUGAGUUAUUUAAGUGAAGCAAUGAUAAAAUGAAGUGUGUUUUAAAUUA
...((((((((((((.(((((((......)))))))))).(((..((((....)))).)))...(((..((((....))))..)))....))))))))).............. ( -26.90)
>DroEre_CAF1 54505 93 - 1
GUUAUUCAUUUUGAGUGCAGGCUAAAUAAAGCCUGCAUUGGCCUUGGUUUAAUAGCU------UUCCAGUUAUUUAAGUGAAGCAAUGA--------AAA------UAUAGCA
((((((((((...((((((((((......)))))))))).((.(((.((.(((((((------....))))))).)).))).)))))))--------...------.))))). ( -28.10)
>DroYak_CAF1 57644 105 - 1
GUUGUCCAUUUUAAGUGCAUGCUAAAUAAAGUCUGCCUUGGCCUUGACUGAAUAGCUUGGCAUUUUCACUUAUUUAAGUGCAGCAAGGA--------AUGGUGUUUUAAAGUA
.....(((((((((((((..((((.....((((.((....))...))))...))))...)))))).(((((....)))))......)))--------))))............ ( -24.80)
>consensus
GUUUUUCAUUUUGAGUGCAGGCUAAAUAAAGUCUGCCUUGGCCUUGGUUUAAUAGCUUGGUAUUUUGAGUUAUUUAAGUGAAGCAAUGAUAAA_UGAAGUGUGUUUUAAAUUA
(((((....((((((((((((((......)))))))((.(((..(......)..))).))...........))))))).)))))............................. (-14.64 = -15.16 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:13 2006