Locus 5812

Sequence ID	X_DroMel_CAF1
Location	15,059,079 – 15,059,209
Length	130
Max. P	0.916610

overview

Window 7

Location	15,059,079 – 15,059,177
Length	98
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	84.83
Mean single sequence MFE	-26.42
Consensus MFE	-17.49
Energy contribution	-18.23
Covariance contribution	0.75
Combinations/Pair	1.00
Mean z-score	-2.52
Structure conservation index	0.66
SVM decision value	1.11
SVM RNA-class probability	0.916610
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15059079 98 - 22224390
GCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGC---ACAGCCAUGCCAUGAAUCAUAUGGGCUGCUAAGGCGAUAAGGCCCC-------------AA--AACCCCUUAUCAGUACC----
((((((((.........))))))))....((((---.(((((....((((.....))))))))).......(((((((....-------------..--....))))))).)))).---- ( -24.50)
>DroSec_CAF1 20314 102 - 1
GCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGC---ACAGCCAUGCCAUGAAUCAUAUGGGCUGCUAAGGCGAUAAGGCCCC-------------GA--AACCCCUUAUCAGACACACAC
((((((((.........)))))))).((.((((---.(((((....((((.....))))))))).......(((((((....-------------..--....))))))).).))))).. ( -24.10)
>DroSim_CAF1 6182 104 - 1
GCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGC---ACAGCCAUGCCAUGAAUCAUAUGGGCUGCUAAGGCGAUAAGGCCCC-------------AAAAAACCCCUUAUCAGGCACACAC
((((((((.........)))))))).((.((((---.(((((....((((.....))))))))).......(((((((....-------------........)))))))..)))))).. ( -27.50)
>DroYak_CAF1 13111 118 - 1
CCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGCAGUAAAUCCAGGCCAUGAAUCAUAUGGCCUGCUAAGCCGAUAAGGCCCCCCAAAAAAAAAAAGA--AACCCCUUAUCAGGCACACAG
.(((((((.........))))))).....(((.........(((((((((.....)))))))))....((((((((((...................--....))))))).))).))).. ( -29.60)
>consensus
GCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGC___ACAGCCAUGCCAUGAAUCAUAUGGGCUGCUAAGGCGAUAAGGCCCC_____________AA__AACCCCUUAUCAGGCACACAC
((((((((.........))))))))((((((((......))....(((((.....))))))))))).....(((((((.........................))))))).......... (-17.49 = -18.23 +   0.75)

alignment

secondary structure

dotplot

Window 8

Location	15,059,100 – 15,059,209
Length	109
Sequences	4
Columns	118
Reading direction	reverse
Mean pairwise identity	90.75
Mean single sequence MFE	-32.75
Consensus MFE	-24.38
Energy contribution	-25.88
Covariance contribution	1.50
Combinations/Pair	1.00
Mean z-score	-2.99
Structure conservation index	0.74
SVM decision value	0.99
SVM RNA-class probability	0.895970
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15059100 109 - 22224390
UGCUUAGCAAAUA------AAACUGGCUGUGGUAAAGGGCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGC---ACAGCCAUGCCAUGAAUCAUAUGGGCUGCUAAGGCGAUAAGGCC
..(((((((....------....((((((((.((....((((((((.........)))))))).....)))---)))))))..(((((.....)))))..)))))))((......)). ( -33.50)
>DroSec_CAF1 20339 109 - 1
UGCUUAGCAAAUA------AAACUGGCUGUGGUAAAGGGCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGC---ACAGCCAUGCCAUGAAUCAUAUGGGCUGCUAAGGCGAUAAGGCC
..(((((((....------....((((((((.((....((((((((.........)))))))).....)))---)))))))..(((((.....)))))..)))))))((......)). ( -33.50)
>DroSim_CAF1 6209 109 - 1
UGCUUAGCAAAUA------AAACUGGCUGUGGUAAAGGGCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGC---ACAGCCAUGCCAUGAAUCAUAUGGGCUGCUAAGGCGAUAAGGCC
..(((((((....------....((((((((.((....((((((((.........)))))))).....)))---)))))))..(((((.....)))))..)))))))((......)). ( -33.50)
>DroYak_CAF1 13149 114 - 1
----UAGCAAAUAAAAAUAAAACUGUCUGUGGUAGAGGCCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGCAGUAAAUCCAGGCCAUGAAUCAUAUGGCCUGCUAAGCCGAUAAGGCC
----((((.............((((((((((((....)))).........(((.......)))..))).)))))......((((((((.....)))))))))))).(((.....))). ( -30.50)
>consensus
UGCUUAGCAAAUA______AAACUGGCUGUGGUAAAGGGCAUUUAUAAUCGCAAAAUAAAUGCAGUAGUGC___ACAGCCAUGCCAUGAAUCAUAUGGGCUGCUAAGGCGAUAAGGCC
..(((((((..............(((((((.(((....((((((((.........)))))))).....)))...)))))))..(((((.....)))))..)))))))........... (-24.38 = -25.88 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:55 2006