Locus 2449

Sequence ID	X_DroMel_CAF1
Location	6,566,074 – 6,566,273
Length	199
Max. P	0.842338

overview

Window 9

Location	6,566,074 – 6,566,171
Length	97
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	97.10
Mean single sequence MFE	-20.98
Consensus MFE	-17.58
Energy contribution	-19.18
Covariance contribution	1.60
Combinations/Pair	1.00
Mean z-score	-1.69
Structure conservation index	0.84
SVM decision value	0.53
SVM RNA-class probability	0.769550
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6566074 97 - 22224390
CGAGAAGAUAUAGCAGGUAGGAUCGAUAGCAAUCGAUGUAUAUGUAUUGUAUUGUACGAUAUGUAGAGAAUAAUAUAUAUAUAUUUGGCAAGCGCCG
.....................((((((....))))))(((((((((((((.((.(((.....))).)).)))))))))))))....(((....))). ( -22.20)
>DroSec_CAF1 11060 97 - 1
CGAGAAGAUAUAGCAGGUAGGAUCGAUAGCAAUCGAUGUAUAUGUAUUGUAUUGUACGAUAUGUAGAGAAUAAUAUAUAUAUAUUUAGCAAGCGCCG
...............(((...((((((....))))))(((((((((((((.((.(((.....))).)).)))))))))))))...........))). ( -21.50)
>DroSim_CAF1 21583 97 - 1
CGAGAAGAUAUAGCAGGUAGGAUCGAUAGCAAUCGAUGUAUAUGUAUUGUAUUGUACGAUAUGUAGAGAAUAAUAUAUAUAUAUUUGGCAAGCGCCG
.....................((((((....))))))(((((((((((((.((.(((.....))).)).)))))))))))))....(((....))). ( -22.20)
>DroEre_CAF1 10690 93 - 1
CGAGAAGAUAUAGCAGGUAGGAUCGAUAGCAAUCGAUGUAUAUGUAUUGUAUUGUACGAUAUGUAGAGAAUAAUAU----AUAUUUGGCAAGCGCCG
.....(((((((.......(.((((((....)))))).).(((((((((((...)))))))))))..........)----))))))(((....))). ( -19.50)
>DroYak_CAF1 20507 93 - 1
CGAGAAGAUAUAGCAGGUAGGAUCGAUAGCAAUCGAUGUAUAUGUAUUGUAUUGUACGAUAUGUAGAGAAUAAUAU----AUAUUUGGCAAGCGCCG
.....(((((((.......(.((((((....)))))).).(((((((((((...)))))))))))..........)----))))))(((....))). ( -19.50)
>consensus
CGAGAAGAUAUAGCAGGUAGGAUCGAUAGCAAUCGAUGUAUAUGUAUUGUAUUGUACGAUAUGUAGAGAAUAAUAUAUAUAUAUUUGGCAAGCGCCG
...............(((...((((((....))))))(((((((((((((.((.(((.....))).)).)))))))))))))...........))). (-17.58 = -19.18 +   1.60)

alignment

secondary structure

dotplot

Window 0

Location	6,566,171 – 6,566,273
Length	102
Sequences	4
Columns	116
Reading direction	forward
Mean pairwise identity	77.52
Mean single sequence MFE	-22.05
Consensus MFE	-14.96
Energy contribution	-15.90
Covariance contribution	0.94
Combinations/Pair	1.08
Mean z-score	-1.82
Structure conservation index	0.68
SVM decision value	0.76
SVM RNA-class probability	0.842338
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6566171 102 + 22224390
CUGGCUUGGGGUUUUCUUUGCUUAUCAUAAUUGGGCGAAAGAAUGCCAAUCCGCAUUCCAAAAUGGUUGUAUGUAUUAGUUUCCAAAUUUUCUUA--------------UUUUCCU
..((.((((.(((((.((((((((.......))))))))))))).)))).))((((.((.....))....)))).....................--------------....... ( -21.40)
>DroSec_CAF1 11157 97 + 1
CUGGCUUGGGGUUUUCUUUGCUUAUCAUAAUUGGGCGAAGGAAUGUCAAU-CGCAUCCCAAAAUGGUU----GUGUUCUUUUCAUAAUUUUCUUU--------------CUUUCCU
..((.(((((((((((((((((((.......)))))))))))).((....-.)))))))))...((((----(((.......)))))))......--------------....)). ( -21.90)
>DroSim_CAF1 21680 99 + 1
CUGGCUUGGGGUUUUCUUUGCUUAUCAUAAUUGGGCGAAGGAAUGCCAAU-CGCAUCCCAAAAUGGUU--AUGUGUUCUUUUCAUAAUUUUCUUC--------------CUUUCCU
..((...(((((((((((((((((.......)))))))))))).)))...-(((((.((.....))..--)))))...................)--------------)...)). ( -23.50)
>DroEre_CAF1 10783 106 + 1
CUGGCUUGGGGUUUUCUUUGCUUAUCAUA-UUGGGCGAUAGAAUGC-------CAUCCAAAAAUGGGC--AAGUAUUCUCAUUAUAUUUUCCUUCUUUUUCCCUUUUCUUUUUCUU
..((..(((.(((((..(((((((.....-.))))))).))))).)-------)).))((((..(((.--((((((.......)))))).)))..))))................. ( -21.40)
>consensus
CUGGCUUGGGGUUUUCUUUGCUUAUCAUAAUUGGGCGAAAGAAUGCCAAU_CGCAUCCCAAAAUGGUU__AUGUAUUCUUUUCAUAAUUUUCUUC______________CUUUCCU
(((..(((((((((((((((((((.......)))))))))))).((......)))))))))..))).................................................. (-14.96 = -15.90 +   0.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:42 2006