Locus 8304

Sequence ID	X_DroMel_CAF1
Location	20,646,891 – 20,647,055
Length	164
Max. P	0.935790

overview

Window 5

Location	20,646,891 – 20,646,983
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	97.61
Mean single sequence MFE	-20.40
Consensus MFE	-18.72
Energy contribution	-18.92
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.25
Structure conservation index	0.92
SVM decision value	0.17
SVM RNA-class probability	0.617021
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20646891 92 - 22224390
AUUCAAUCUGUUUUGCAUAUUGAAUCAAUAAGAGAUUUAAGCCGAGAUGCAACGGGAGAUGACCAGUUUCAAUCCGUCUCUCUCAGUUCCAA
.......(((..((((((.(((((((.......)))))))......)))))).((((((((.............)))))))).)))...... ( -19.62)
>DroSec_CAF1 51135 92 - 1
AUUCAAUCUGUUUUGCAUAUUGAAUCAAUAAGAGAUUUAAGCCGAGAUGCAACGGGAGAUGACCAGCUUCAAUCCGUCUCUCUCAGUUCCAA
.......(((..((((((.(((((((.......)))))))......)))))).((((((((.............)))))))).)))...... ( -19.62)
>DroSim_CAF1 33737 92 - 1
AUUCAAUCUGUUUUGCAUAUUGAAUCAAUAAGAGAUUUAAGCCGAGAUGCAACGGGAGAUGACCAGCUUCAAUCCGUCUCUCUCAGUUCCAA
.......(((..((((((.(((((((.......)))))))......)))))).((((((((.............)))))))).)))...... ( -19.62)
>DroEre_CAF1 51910 92 - 1
AUUCAAUCUGUUUUGCAUAUUGAAUCAAUGAGAGAUUUAAGCCGAGAUGCAACCGGAGAUGACCAGUUUCCAUCCGUCUCUCUCAGUUCCAA
(((((((.((.....)).)))))))...(((((((.....((......))....((((((.....)))))).......)))))))....... ( -21.70)
>DroYak_CAF1 52962 92 - 1
AUUGAAUCUGUUUUGCAUAUUGAAUCAAUAAGAGAUUUAAGCCGAGAUGCAACGGGAGAUGACCAGUUUCAAUCCGUCUCUCUCAGUUCCAA
...(((.(((..((((((.(((((((.......)))))))......)))))).((((((((.............)))))))).))))))... ( -21.42)
>consensus
AUUCAAUCUGUUUUGCAUAUUGAAUCAAUAAGAGAUUUAAGCCGAGAUGCAACGGGAGAUGACCAGUUUCAAUCCGUCUCUCUCAGUUCCAA
.......(((..((((((.(((((((.......)))))))......)))))).((((((((.............)))))))).)))...... (-18.72 = -18.92 +   0.20)

alignment

secondary structure

dotplot

Window 6

Location	20,646,950 – 20,647,055
Length	105
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	93.93
Mean single sequence MFE	-26.73
Consensus MFE	-21.58
Energy contribution	-21.54
Covariance contribution	-0.04
Combinations/Pair	1.10
Mean z-score	-2.02
Structure conservation index	0.81
SVM decision value	1.25
SVM RNA-class probability	0.935790
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20646950 105 - 22224390
UGAUUUAACGAAAAUCGCUUGUGAA-AAAGGCUUUUAUAAGUGCAGCAAGAGGGUACCGACGAUAUCCUUUGGAUUCAAUCUGUUUUGCAUAUUGAAUCAAUAAGA
.(((((.....)))))(((((((((-(.....))))))))))......((((((((.......)))))))).((((((((.((.....)).))))))))....... ( -25.10)
>DroSec_CAF1 51194 105 - 1
UGAUUUAACGAAAAUCGCUUGUGAA-AAAGGCUUUUACAAGUGCAGCAAGAGGGGACCGACGAUAUCCUUUGGAUUCAAUCUGUUUUGCAUAUUGAAUCAAUAAGA
((((((((........(((((((((-(.....))))))))))((((..(((..(((((((.(.....).)))).)))..)))...))))...))))))))...... ( -26.90)
>DroSim_CAF1 33796 105 - 1
UGAUUUAACGAAAAUCGCUUGUGAA-AAAGGCUUUUACAAGUGCAGCAAGAGGGCACCGACGAUAUCCUUUGGAUUCAAUCUGUUUUGCAUAUUGAAUCAAUAAGA
((((((((.......((((((((((-(.....)))))))))))..((((((.((....((....((((...))))))...)).))))))...))))))))...... ( -25.30)
>DroEre_CAF1 51969 105 - 1
UGAUUUAACGAAAAUCGCUUGUGAAUAAAGGCUCUUACAAGUGCAGCA-AGAGGGACCGACGAUAUCCGUUGGAUUCAAUCUGUUUUGCAUAUUGAAUCAAUGAGA
((((((((.......(((((((((..........)))))))))..(((-(((.(((((((((.....))))))......))).))))))...))))))))...... ( -30.40)
>DroYak_CAF1 53021 105 - 1
UGAUUUAACGAAAAUCGCUUGUGAA-AAAGACUCUUACAAGUGCAGCAAAGGGGGACCGACGAUAUCGCUUGGAUUGAAUCUGUUUUGCAUAUUGAAUCAAUAAGA
((((((((((.....))..((..((-(.(((.((...((((((.......((....))........))))))....)).))).)))..))..))))))))...... ( -25.96)
>consensus
UGAUUUAACGAAAAUCGCUUGUGAA_AAAGGCUUUUACAAGUGCAGCAAGAGGGGACCGACGAUAUCCUUUGGAUUCAAUCUGUUUUGCAUAUUGAAUCAAUAAGA
((((((((.......((((((((((........))))))))))..((((((.((......(((......)))........)).))))))...))))))))...... (-21.58 = -21.54 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:36 2006