Locus 446

Sequence ID	2L_DroMel_CAF1
Location	1,324,113 – 1,324,232
Length	119
Max. P	0.997548

overview

Window 2

Location	1,324,113 – 1,324,232
Length	119
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	96.70
Mean single sequence MFE	-32.52
Consensus MFE	-29.95
Energy contribution	-29.82
Covariance contribution	-0.14
Combinations/Pair	1.03
Mean z-score	-0.92
Structure conservation index	0.92
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1324113 119 + 22407834
G-UUUUGUGGAAGACAAAGUAUGGCCGCAUUGGGUUACGACUCCUUGCAUCCUAAUGUGACUCCUGCGGUUUGCAUUUGAAUGCAAUUUGUGGCAAAAGCCGAGAUAAAAACUAAGGCAA
.-((((((.....))))))....(((((((((((...(((....)))...))))))))..(((..((((.((((((....)))))).))))(((....))))))...........))).. ( -31.60)
>DroSec_CAF1 81529 119 + 1
G-UUUUGUGGAAGACAAAGUAUGGCCGCAUUGGGUUACGACUCCUUGCAUCCUAAUGUGACUCCUGCGGUUUGCAUUUGAAUGCAAUUUGUGGCAAAAGCCGAGAUAAAAACUAAGGCAA
.-((((((.....))))))....(((((((((((...(((....)))...))))))))..(((..((((.((((((....)))))).))))(((....))))))...........))).. ( -31.60)
>DroSim_CAF1 85017 119 + 1
G-UUUUGUGGAAGACAAAGUAUGGCCGCAUUGGGUUACGACUCCUUGCAUCCUAAUGUGACUCCUGCGGUUUGCAUUUGAAUGCAAUUUGUGGCAAAAGCCGAGAUAAAAACUAAGGCAA
.-((((((.....))))))....(((((((((((...(((....)))...))))))))..(((..((((.((((((....)))))).))))(((....))))))...........))).. ( -31.60)
>DroEre_CAF1 94691 117 + 1
G---UUUUGGAAGACAAAGUAUGGCCGCAUUGGGUUACGACUCCUUGCAUCCUAAUGCGACUCCUGCGGUUUGCAUUUGAAUGCAAUUUGUGGCCAAAGCCGAGAUAAAAACUAAGGCAA
.---(((((.....)))))..((((((((..((((....)))).((((((.(.(((((((..((...)).))))))).).))))))..))))))))..(((..............))).. ( -34.74)
>DroYak_CAF1 84791 119 + 1
G-GUUUUUGGAAGACAAAGUAUGGCCGCAUUGGGUUACGACUCCUUGCAUCCUAAUGUGACUCCUGCGGUUUGCAUUUGAAUGCAAUUUGUGGCAAAAGCCGAGAUAAAAACUAAGGCAA
(-(((((((....(((((.....((((((..((((((((................)))))))).))))))((((((....)))))))))))(((....)))....))))))))....... ( -31.89)
>DroAna_CAF1 107801 119 + 1
GAGGUUUUGGAAGACAAAGUACGGCCGCAUUGGGUUACGACUCCUUGCAUCCUAAUGUGACUCCUGCGGCUUGCAUUUGAAUGCAAUUUGUGGCA-AAGCCGAGAUAAAAACUAAGGCAA
...(((((((...(((((....(((((((..((((((((................)))))))).)))))))(((((....))))).)))))(((.-..)))..........))))))).. ( -33.69)
>consensus
G_UUUUGUGGAAGACAAAGUAUGGCCGCAUUGGGUUACGACUCCUUGCAUCCUAAUGUGACUCCUGCGGUUUGCAUUUGAAUGCAAUUUGUGGCAAAAGCCGAGAUAAAAACUAAGGCAA
.......................(((((((((((...(((....)))...))))))))..(((..((((.((((((....)))))).))))(((....))))))...........))).. (-29.95 = -29.82 +  -0.14)

alignment

secondary structure

dotplot

Window 3

Location	1,324,113 – 1,324,232
Length	119
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	96.70
Mean single sequence MFE	-30.48
Consensus MFE	-29.42
Energy contribution	-29.75
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.71
Structure conservation index	0.97
SVM decision value	2.88
SVM RNA-class probability	0.997548
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1324113 119 - 22407834
UUGCCUUAGUUUUUAUCUCGGCUUUUGCCACAAAUUGCAUUCAAAUGCAAACCGCAGGAGUCACAUUAGGAUGCAAGGAGUCGUAACCCAAUGCGGCCAUACUUUGUCUUCCACAAAA-C
........(((((......(((((((((......((((((....))))))...)))))))))......(((.((((((.((((((......))))))....))))))..)))..))))-) ( -30.60)
>DroSec_CAF1 81529 119 - 1
UUGCCUUAGUUUUUAUCUCGGCUUUUGCCACAAAUUGCAUUCAAAUGCAAACCGCAGGAGUCACAUUAGGAUGCAAGGAGUCGUAACCCAAUGCGGCCAUACUUUGUCUUCCACAAAA-C
........(((((......(((((((((......((((((....))))))...)))))))))......(((.((((((.((((((......))))))....))))))..)))..))))-) ( -30.60)
>DroSim_CAF1 85017 119 - 1
UUGCCUUAGUUUUUAUCUCGGCUUUUGCCACAAAUUGCAUUCAAAUGCAAACCGCAGGAGUCACAUUAGGAUGCAAGGAGUCGUAACCCAAUGCGGCCAUACUUUGUCUUCCACAAAA-C
........(((((......(((((((((......((((((....))))))...)))))))))......(((.((((((.((((((......))))))....))))))..)))..))))-) ( -30.60)
>DroEre_CAF1 94691 117 - 1
UUGCCUUAGUUUUUAUCUCGGCUUUGGCCACAAAUUGCAUUCAAAUGCAAACCGCAGGAGUCGCAUUAGGAUGCAAGGAGUCGUAACCCAAUGCGGCCAUACUUUGUCUUCCAAAA---C
..(((..((((........))))..))).......(((((((...(((.....))).)))).)))...(((.((((((.((((((......))))))....))))))..)))....---. ( -30.00)
>DroYak_CAF1 84791 119 - 1
UUGCCUUAGUUUUUAUCUCGGCUUUUGCCACAAAUUGCAUUCAAAUGCAAACCGCAGGAGUCACAUUAGGAUGCAAGGAGUCGUAACCCAAUGCGGCCAUACUUUGUCUUCCAAAAAC-C
........((((((.....(((((((((......((((((....))))))...)))))))))......(((.((((((.((((((......))))))....))))))..)))))))))-. ( -32.90)
>DroAna_CAF1 107801 119 - 1
UUGCCUUAGUUUUUAUCUCGGCUU-UGCCACAAAUUGCAUUCAAAUGCAAGCCGCAGGAGUCACAUUAGGAUGCAAGGAGUCGUAACCCAAUGCGGCCGUACUUUGUCUUCCAAAACCUC
........(((((......(((((-(((......((((((....))))))...))).)))))......(((.((((((.((((((......))))))....))))))..))))))))... ( -28.20)
>consensus
UUGCCUUAGUUUUUAUCUCGGCUUUUGCCACAAAUUGCAUUCAAAUGCAAACCGCAGGAGUCACAUUAGGAUGCAAGGAGUCGUAACCCAAUGCGGCCAUACUUUGUCUUCCAAAAAA_C
...................(((((((((......((((((....))))))...)))))))))......(((.((((((.((((((......))))))....))))))..)))........ (-29.42 = -29.75 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:25 2006