Locus 6621

Sequence ID	3R_DroMel_CAF1
Location	17,422,508 – 17,422,604
Length	96
Max. P	0.987466

overview

Window 9

Location	17,422,508 – 17,422,604
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	93.02
Mean single sequence MFE	-29.20
Consensus MFE	-23.68
Energy contribution	-23.76
Covariance contribution	0.08
Combinations/Pair	1.07
Mean z-score	-1.99
Structure conservation index	0.81
SVM decision value	1.35
SVM RNA-class probability	0.944933
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17422508 96 + 27905053
GCAGACUCAAUGAAUUGCGGUGUGAGCGUGUAUUUUGGUAUUUUCGGUCAUGGGACCAUUUGGGCCACGUUUUCUUUGUGUCUGCACAUUUGGCAA
((((((.(((.(((..(((..((((.((.((((....))))...)).)))).((.((....)).)).))).))).))).))))))........... ( -29.70)
>DroSec_CAF1 26445 92 + 1
GCAGACUCAAUGAAUUGCGGUGUGAGUGUGUAUUUUGGUAUUUUCGGUCAUGGGACCAUUUGGGCCACGUUUUCUUUGUGUCUGCCCAUUUG----
((((((.(((.(((.((.(((.(((((..((((....))))....((((....))))))))).))).))..))).))).)))))).......---- ( -27.30)
>DroSim_CAF1 23897 96 + 1
GCAGACUCAAUGAAUUGUGGUGUGAGUGUGUAUUUUGGUAUUUUCGGUCAUGGGACCAUUUGGGCCACGUUUUCUUUGUGUCUGCACAUUUGGCAA
((((((.(((.(((.((((((.(((((..((((....))))....((((....))))))))).))))))..))).))).))))))........... ( -32.10)
>DroEre_CAF1 26190 96 + 1
GCAGACUCAAUGAAUUGCGGUGUGAGUGUGUAUUAUGGUAUUUUCGAUCAUGGGACCAUUUCGGCCACGUUUUCUUUGUGUCUGCACAUUUGGCAA
((((((.(((.(((.((.(((..(((((.((.(((((((.......))))))).)))))))..))).))..))).))).))))))........... ( -29.60)
>DroYak_CAF1 24210 95 + 1
GCGGACCCAAUGAAUUGCGGUGUGAGAGUGUAUUUUGGUAUUUUCGGUCAUGGGACCAUUUGUGCUACGUC-UCUUUGUGUCUGCACAUUUGGCAA
((((((.(((.((..((..(..((((((((........)))))))((((....))))....)..)..))..-)).))).))))))........... ( -27.30)
>consensus
GCAGACUCAAUGAAUUGCGGUGUGAGUGUGUAUUUUGGUAUUUUCGGUCAUGGGACCAUUUGGGCCACGUUUUCUUUGUGUCUGCACAUUUGGCAA
((((((.(((.(((.((.(((..(((...((((....)))).)))((((....))))......))).))..))).))).))))))........... (-23.68 = -23.76 +   0.08)

alignment

secondary structure

dotplot

Window 0

Location	17,422,508 – 17,422,604
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	93.02
Mean single sequence MFE	-18.87
Consensus MFE	-17.57
Energy contribution	-17.85
Covariance contribution	0.28
Combinations/Pair	1.09
Mean z-score	-1.65
Structure conservation index	0.93
SVM decision value	2.08
SVM RNA-class probability	0.987466
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17422508 96 - 27905053
UUGCCAAAUGUGCAGACACAAAGAAAACGUGGCCCAAAUGGUCCCAUGACCGAAAAUACCAAAAUACACGCUCACACCGCAAUUCAUUGAGUCUGC
...........((((((.(((.(((..(((((.((....))..))))).....................((.......))..))).))).)))))) ( -21.30)
>DroSec_CAF1 26445 92 - 1
----CAAAUGGGCAGACACAAAGAAAACGUGGCCCAAAUGGUCCCAUGACCGAAAAUACCAAAAUACACACUCACACCGCAAUUCAUUGAGUCUGC
----.......((((((.(((.(((...((((.......((((....))))((..................))...))))..))).))).)))))) ( -20.07)
>DroSim_CAF1 23897 96 - 1
UUGCCAAAUGUGCAGACACAAAGAAAACGUGGCCCAAAUGGUCCCAUGACCGAAAAUACCAAAAUACACACUCACACCACAAUUCAUUGAGUCUGC
...........((((((.(((.(((...((((.......((((....))))((..................))...))))..))).))).)))))) ( -20.47)
>DroEre_CAF1 26190 96 - 1
UUGCCAAAUGUGCAGACACAAAGAAAACGUGGCCGAAAUGGUCCCAUGAUCGAAAAUACCAUAAUACACACUCACACCGCAAUUCAUUGAGUCUGC
...........((((((.(((.(((...((((.(((.(((....)))..)))...((......))...........))))..))).))).)))))) ( -18.40)
>DroYak_CAF1 24210 95 - 1
UUGCCAAAUGUGCAGACACAAAGA-GACGUAGCACAAAUGGUCCCAUGACCGAAAAUACCAAAAUACACUCUCACACCGCAAUUCAUUGGGUCCGC
...((((.((((....))))..((-((.(((.......(((((....)))))............)))..)))).............))))...... ( -14.11)
>consensus
UUGCCAAAUGUGCAGACACAAAGAAAACGUGGCCCAAAUGGUCCCAUGACCGAAAAUACCAAAAUACACACUCACACCGCAAUUCAUUGAGUCUGC
...........((((((.(((.(((...((((.......((((....))))((..................))...))))..))).))).)))))) (-17.57 = -17.85 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:06 2006