Locus 6713

Sequence ID	X_DroMel_CAF1
Location	16,739,198 – 16,739,357
Length	159
Max. P	0.565760

overview

Window 1

Location	16,739,198 – 16,739,317
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.80
Mean single sequence MFE	-23.54
Consensus MFE	-17.36
Energy contribution	-17.44
Covariance contribution	0.08
Combinations/Pair	1.09
Mean z-score	-1.60
Structure conservation index	0.74
SVM decision value	0.02
SVM RNA-class probability	0.542006
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16739198 119 - 22224390
UCAAUUGCAAUUUUUAUAACGCUGCCCAGCGUUUUUAUGCCGCAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG-GUUUUUCUCUCUUAUCGCAAGGUCGUUCAUAAAAAACAUAUAU
..........(((((((((((..(((..(((.......((((.((((((...((((....))))...)))))).))-)).............)))..))))))).)))))))........ ( -25.25)
>DroSec_CAF1 26882 118 - 1
UGAAUUGCAAUUUUUAUAACGCUGACCAGCGUUUUUAUGCCGCAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG-GUUUUUCUCUCUUAUCGCAAGGUCGUUCAUAAA-AACAUAUAU
.((.((((.........((((((....)))))).....((((.((((((...((((....))))...)))))).))-))..............))))..)).........-......... ( -26.30)
>DroSim_CAF1 25022 101 - 1
UCAAUUGCAAUUUUUAUAACGCUGACCAGCGUUUUUAUGCCGCAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG-GUUUUUCUCUCUUAUCGCAAGGUCG------------------
....((((.........((((((....)))))).....((((.((((((...((((....))))...)))))).))-))..............)))).....------------------ ( -24.70)
>DroEre_CAF1 18192 118 - 1
UCAAUUGCAAUUUUUAUAACGCUGCCCAGCGUUUUUAUGCCACAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG-UUUUUUCUCUCUUAUCGCAAGGCCGUUUAUAAA-AACAUAUAU
..........(((((((((.((.(((..(((.....................((((....))))....((((....-...))))........)))..))).)))))))))-))....... ( -20.10)
>DroYak_CAF1 18254 119 - 1
UCAAUUGCAAUUUUUAUAACGCUGUCCAGCGUUUUUAUGCCACAUUUUAUUGCUUAACAAUGGGAUCUGAAAUUCGGUUUUUUCUCUCUUAUCGCAAGGCCGUUCAUGAA-AACAAAAAC
....................(((....)))(((((((((.((.(((((((((.....))))))))).)).....(((((((..............)))))))..))))))-)))...... ( -21.34)
>consensus
UCAAUUGCAAUUUUUAUAACGCUGACCAGCGUUUUUAUGCCGCAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG_GUUUUUCUCUCUUAUCGCAAGGUCGUUCAUAAA_AACAUAUAU
....((((.........((((((....)))))).......((.((((((...((((....))))...)))))).)).................))))....................... (-17.36 = -17.44 +   0.08)

alignment

secondary structure

dotplot

Window 2

Location	16,739,238 – 16,739,357
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.31
Mean single sequence MFE	-28.25
Consensus MFE	-21.76
Energy contribution	-21.92
Covariance contribution	0.16
Combinations/Pair	1.10
Mean z-score	-1.84
Structure conservation index	0.77
SVM decision value	0.06
SVM RNA-class probability	0.565760
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16739238 119 - 22224390
ACCCCGAAAACAAGAAUGUCGCUUUUUGCUCGGAUCCAUUUCAAUUGCAAUUUUUAUAACGCUGCCCAGCGUUUUUAUGCCGCAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG-GUU
...(((((....(((((((.((...((((...((......))....)))).......((((((....)))))).....)).)))))))....((((....))))........))))-).. ( -28.80)
>DroSec_CAF1 26921 119 - 1
ACCCCGAAAACAAGAAUGUCGCUUUUUGCUCGGAUCCAUUUGAAUUGCAAUUUUUAUAACGCUGACCAGCGUUUUUAUGCCGCAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG-GUU
...(((((....(((((((.((...(((((((((....)))))...)))).......((((((....)))))).....)).)))))))....((((....))))........))))-).. ( -28.20)
>DroSim_CAF1 25044 119 - 1
ACCCCGAAAACAAGAAUGUCGCUUUUUGCUCGGAUCCAUUUCAAUUGCAAUUUUUAUAACGCUGACCAGCGUUUUUAUGCCGCAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG-GUU
...(((((....(((((((.((...((((...((......))....)))).......((((((....)))))).....)).)))))))....((((....))))........))))-).. ( -28.80)
>DroEre_CAF1 18231 119 - 1
ACCCCGAAAACGAGAAUGUCGCUUUUUGCUCGGAUCCAUUUCAAUUGCAAUUUUUAUAACGCUGCCCAGCGUUUUUAUGCCACAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG-UUU
.......((((((((((((.((...((((...((......))....)))).......((((((....)))))).....)).)))))).....((((....)))).........)))-))) ( -25.90)
>DroYak_CAF1 18293 120 - 1
ACCCCGAAGACAAGAAUGCCACUUUUUGCUCGGAUCCAUUUCAAUUGCAAUUUUUAUAACGCUGUCCAGCGUUUUUAUGCCACAUUUUAUUGCUUAACAAUGGGAUCUGAAAUUCGGUUU
...((((((.((((((......)))))))((((((((.........(((((......((((((....))))))...............))))).........))))))))..)))))... ( -29.57)
>consensus
ACCCCGAAAACAAGAAUGUCGCUUUUUGCUCGGAUCCAUUUCAAUUGCAAUUUUUAUAACGCUGACCAGCGUUUUUAUGCCGCAUUUUAUUGCCCAACAAUGGGAACUGAAAUUCG_GUU
....((((....(((((((.((...((((...((......))....)))).......((((((....)))))).....)).)))))))....((((....))))........)))).... (-21.76 = -21.92 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:33 2006