Locus 109

Sequence ID	2L_DroMel_CAF1
Location	370,555 – 370,674
Length	119
Max. P	0.998383

overview

Window 8

Location	370,555 – 370,674
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.25
Mean single sequence MFE	-32.18
Consensus MFE	-26.84
Energy contribution	-27.28
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-2.78
Structure conservation index	0.83
SVM decision value	3.08
SVM RNA-class probability	0.998383
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 370555 119 + 22407834
CGUCUGCUGCAUAAAUUUGCAGCCAAAAACAAACAUUCCAAUCGAAUGUGUUUGGCAAAGAAGUCAUUUGGGAUGGCAGCAGAAAAAUACCCUAUCAGAAAGAUAUCAGCUUAUGAUAC-
..((((((((...........((((((.....((((((.....)))))).))))))......(((......))).)))))))).........(((((..(((.......))).))))).- ( -31.70)
>DroSec_CAF1 38107 120 + 1
CGUCUGCUGCAUAAAUUUGCAGCCAAAAACAAACAUUCCAAUCGAAUGUGUUUGGCAAAGGAGUCAUUUGGGAUGGCAGCAGAAAAAUACCCUAUCAGAAAGAUACCAGCUUAUGAUAUG
..((((((((...........((((((.....((((((.....)))))).))))))......(((......))).)))))))).........(((((..(((.......))).))))).. ( -31.80)
>DroSim_CAF1 38777 120 + 1
CGUCUGCUGCAUAAAUUUGCAGCCAAAAACAAACAUUCCAAUCGAAUGUGUUUGGCAAAGGAGUCAUUUGGGAUGGCAGCAGAAAAAUACCCUAUCUGAAAGAAAUCAGCUUAUGAUAUG
..((((((((...........((((((.....((((((.....)))))).))))))......(((......))).))))))))............((((......))))........... ( -30.80)
>DroEre_CAF1 44642 118 + 1
CGUCUGCUGCAUAAAUUUGCAGCCAA-AACAAACAUUCCAAUCGAAUGCGUUUGGCAAGGAAGUCAUUUGGGAUGGCAGCAGAAGAAUACCCUAUCAAAAAGAUGU-AGCUUAGCACACG
.((..(((((((...(((((.(((((-(.....(((((.....)))))..))))))......((((((...)))))).))))).((........))......))))-)))...))..... ( -29.90)
>DroYak_CAF1 39236 120 + 1
CGUCUGCUGCAUAAAUUUGCAGCCAAAAACAAACAUUCCAAUCGAAUGUGUUUGGCAAAGAAGUCAUUUGCGAAGGCAGCGGAAAAAUACCCUAACAUCAAGAUAUCAACUAGGGAUACG
..((((((((.....((((((((((((.....((((((.....)))))).))))))...(....)...)))))).))))))))......(((((................)))))..... ( -36.69)
>consensus
CGUCUGCUGCAUAAAUUUGCAGCCAAAAACAAACAUUCCAAUCGAAUGUGUUUGGCAAAGAAGUCAUUUGGGAUGGCAGCAGAAAAAUACCCUAUCAGAAAGAUAUCAGCUUAUGAUACG
..((((((((...........((((((.....((((((.....)))))).))))))......(((......))).))))))))..................................... (-26.84 = -27.28 +   0.44)

alignment

secondary structure

dotplot

Window 9

Location	370,555 – 370,674
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.25
Mean single sequence MFE	-28.66
Consensus MFE	-24.74
Energy contribution	-25.42
Covariance contribution	0.68
Combinations/Pair	1.06
Mean z-score	-1.20
Structure conservation index	0.86
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 370555 119 - 22407834
-GUAUCAUAAGCUGAUAUCUUUCUGAUAGGGUAUUUUUCUGCUGCCAUCCCAAAUGACUUCUUUGCCAAACACAUUCGAUUGGAAUGUUUGUUUUUGGCUGCAAAUUUAUGCAGCAGACG
-............((((((((......))))))))..(((((((((((.....)))........((((((.((((((.....)))))).....))))))...........)))))))).. ( -28.80)
>DroSec_CAF1 38107 120 - 1
CAUAUCAUAAGCUGGUAUCUUUCUGAUAGGGUAUUUUUCUGCUGCCAUCCCAAAUGACUCCUUUGCCAAACACAUUCGAUUGGAAUGUUUGUUUUUGGCUGCAAAUUUAUGCAGCAGACG
.............((((((((......))))))))..(((((((((((.....)))........((((((.((((((.....)))))).....))))))...........)))))))).. ( -28.30)
>DroSim_CAF1 38777 120 - 1
CAUAUCAUAAGCUGAUUUCUUUCAGAUAGGGUAUUUUUCUGCUGCCAUCCCAAAUGACUCCUUUGCCAAACACAUUCGAUUGGAAUGUUUGUUUUUGGCUGCAAAUUUAUGCAGCAGACG
.(((((.....((((......))))....)))))...(((((((((((.....)))........((((((.((((((.....)))))).....))))))...........)))))))).. ( -31.10)
>DroEre_CAF1 44642 118 - 1
CGUGUGCUAAGCU-ACAUCUUUUUGAUAGGGUAUUCUUCUGCUGCCAUCCCAAAUGACUUCCUUGCCAAACGCAUUCGAUUGGAAUGUUUGUU-UUGGCUGCAAAUUUAUGCAGCAGACG
..........(((-..(((.....)))..))).....(((((((((((.....)))........((((((.((((((.....))))))....)-)))))...........)))))))).. ( -28.60)
>DroYak_CAF1 39236 120 - 1
CGUAUCCCUAGUUGAUAUCUUGAUGUUAGGGUAUUUUUCCGCUGCCUUCGCAAAUGACUUCUUUGCCAAACACAUUCGAUUGGAAUGUUUGUUUUUGGCUGCAAAUUUAUGCAGCAGACG
.(((.(((((((..(....)..))..)))))))).....((((((...................((((((.((((((.....)))))).....))))))((((......)))))))).)) ( -26.50)
>consensus
CGUAUCAUAAGCUGAUAUCUUUCUGAUAGGGUAUUUUUCUGCUGCCAUCCCAAAUGACUUCUUUGCCAAACACAUUCGAUUGGAAUGUUUGUUUUUGGCUGCAAAUUUAUGCAGCAGACG
.............((((((((......))))))))..(((((((((((.....)))........(((((((((((((.....))))))..))..)))))...........)))))))).. (-24.74 = -25.42 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:26:01 2006