Locus 2990

Sequence ID	X_DroMel_CAF1
Location	7,962,698 – 7,962,858
Length	160
Max. P	0.707538

overview

Window 4

Location	7,962,698 – 7,962,818
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.78
Mean single sequence MFE	-42.83
Consensus MFE	-36.50
Energy contribution	-37.00
Covariance contribution	0.50
Combinations/Pair	1.11
Mean z-score	-1.60
Structure conservation index	0.85
SVM decision value	0.28
SVM RNA-class probability	0.666090
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7962698 120 + 22224390
GGGUCGGCGCGAAAGGAAUCAUUCAAGACCCUUGAUGUUCUGCUAGAGGCACUGCAGCCACAAGCAGUGGCGCCCUUCUUCCAUGUCAUAGCCACCUAUUUGCGUUGCGCCAUGACUCAC
((((((((((((..(((((...(((((...))))).)))))(((.(.(((......))).).))).(((((......(......).....))))).........)))))))..))))).. ( -39.30)
>DroSim_CAF1 12819 120 + 1
GGGUCGGCGCGAAAGGAAUCAUUCAAGACGCUUGAUGUUCUGCUAGAGGCACUGCAGCCACAGGCAGUGGCGCCCUUCUUCCAUGUCAUAGCCACCUAUUUGCGUUGCGCCAUGACCCAU
((((((((((((..(((((...(((((...))))).)))))((....(((......)))...(((.((((((...........)))))).)))........)).)))))))..))))).. ( -43.20)
>DroEre_CAF1 13736 120 + 1
AGGUCGGCGCGACAGGAAUCAUUCAAGACCCUUGACGUUCUGCUGGAGGCCCUGCAGCCACAGGCAGUGGCUCCAUUCUUCCAUGUCAUAGCCACCUAUUUGCGUUGCGCCAUGACCCAC
.((((((((((((.(((((...(((((...))))).)))))((((((((...((.((((((.....)))))).))..))))))....((((....))))..))))))))))..))))... ( -44.80)
>DroYak_CAF1 14045 120 + 1
AGGUCGGCGCGACAGGAAUCAUUUAAGACCCUUGAUGUCAUGCUGGAGGCCCUGCAGCCGCAGGCAGUGGCGCCCUUCUUCCAUGUCAUUGCCACCUAUUUGCGUUGCGCCAUGACCCAC
.(((((((((((((((..((......)).))).((((.((((..(((((....((.(((((.....))))))))))))...)))).)))).............))))))))..))))... ( -44.00)
>consensus
AGGUCGGCGCGAAAGGAAUCAUUCAAGACCCUUGAUGUUCUGCUAGAGGCACUGCAGCCACAGGCAGUGGCGCCCUUCUUCCAUGUCAUAGCCACCUAUUUGCGUUGCGCCAUGACCCAC
((((((((((((((((((....(((((...))))).((((((((.(.(((......))).).))))).))).......)))).))))...((.........))...)))))..))))).. (-36.50 = -37.00 +   0.50)

alignment

secondary structure

dotplot

Window 5

Location	7,962,738 – 7,962,858
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.00
Mean single sequence MFE	-49.98
Consensus MFE	-45.58
Energy contribution	-45.57
Covariance contribution	-0.00
Combinations/Pair	1.11
Mean z-score	-1.61
Structure conservation index	0.91
SVM decision value	0.37
SVM RNA-class probability	0.707538
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7962738 120 - 22224390
CGAGCAUGAGCAGCGAGUCCUCCUGGAUGGCGGGCAGCACGUGAGUCAUGGCGCAACGCAAAUAGGUGGCUAUGACAUGGAAGAAGGGCGCCACUGCUUGUGGCUGCAGUGCCUCUAGCA
.((((((..(((((..((((....)))).((((((((.((....))..((((((..(((......))).((((...)))).......)))))))))))))).))))).))).)))..... ( -45.10)
>DroSim_CAF1 12859 120 - 1
CGAGCAUGAGCAGCGAGUCCUCCUGGAUGGCGGGCAGCACAUGGGUCAUGGCGCAACGCAAAUAGGUGGCUAUGACAUGGAAGAAGGGCGCCACUGCCUGUGGCUGCAGUGCCUCUAGCA
.((((((..(((((..((((.((.....)).))))....(((((((..((((((..(((......))).((((...)))).......))))))..)))))))))))).))).)))..... ( -47.70)
>DroEre_CAF1 13776 120 - 1
CGAGCAUGAGGAGGGAGUCCUCCUGGAUGGCGGGCAGCACGUGGGUCAUGGCGCAACGCAAAUAGGUGGCUAUGACAUGGAAGAAUGGAGCCACUGCCUGUGGCUGCAGGGCCUCCAGCA
...((...((((((....))))))(((.(((..(((((.((..(((....(((...))).....(((((((....(((......))).))))))))))..)))))))...)))))).)). ( -54.10)
>DroYak_CAF1 14085 120 - 1
CGAGCAUGAGGAGCGAGUCCUCCUGGAUGGCGGGCAGCACGUGGGUCAUGGCGCAACGCAAAUAGGUGGCAAUGACAUGGAAGAAGGGCGCCACUGCCUGCGGCUGCAGGGCCUCCAGCA
...((..(((((.....))))).((((.(((..(((((.((..(((..((((((..(((......))).((......))........))))))..)))..)))))))...))))))))). ( -53.00)
>consensus
CGAGCAUGAGCAGCGAGUCCUCCUGGAUGGCGGGCAGCACGUGGGUCAUGGCGCAACGCAAAUAGGUGGCUAUGACAUGGAAGAAGGGCGCCACUGCCUGUGGCUGCAGGGCCUCCAGCA
...((..(((((.....))))).((((.(((..(((((.((..(((..((((((..(((......))).((((...)))).......))))))..)))..)))))))...))))))))). (-45.58 = -45.57 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:28 2006