Locus 7741

Sequence ID	3L_DroMel_CAF1
Location	20,648,577 – 20,648,682
Length	105
Max. P	0.706331

overview

Window 6

Location	20,648,577 – 20,648,682
Length	105
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	80.75
Mean single sequence MFE	-21.58
Consensus MFE	-12.23
Energy contribution	-13.04
Covariance contribution	0.81
Combinations/Pair	1.08
Mean z-score	-2.04
Structure conservation index	0.57
SVM decision value	0.23
SVM RNA-class probability	0.645676
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20648577 105 + 23771897
UUGCCCCU---------GCCCUGCACAGCAGAAUGAAGACAAAUAUUUU-CCCUUGAGAUUCAACUUUCAAUAAAUAAAAGCAAAUAUUUGUCAACAUUUCGUGUUGUGGCACUC
.((((...---------((...))(((((((((((..(((((((((((.-...((((((......))))))...........)))))))))))..)))))..))))))))))... ( -24.36)
>DroSec_CAF1 21326 87 + 1
---------------------------GCAGAAUGAAGACAAAUAUUUU-CCCUUGAGAUACAACUUUCAAUAAAUAAAAGCAAAUAUUUGUCAACAUUUCGUGUUGAGGCACUC
---------------------------...(((((..(((((((((((.-...((((((......))))))...........)))))))))))..))))).((((....)))).. ( -16.76)
>DroSim_CAF1 24604 105 + 1
UUGCCCCU---------GCCCUGCACAGCAGAAUGAAGACAAAUAUUUU-CCCUUGAGAUACAACUUUCAAUAAAUAAAAGCAAAUAUUUGUCAACAUUUCGUGUUGAGGCACUC
.((((..(---------((...)))((((((((((..(((((((((((.-...((((((......))))))...........)))))))))))..)))))..))))).))))... ( -23.96)
>DroEre_CAF1 10190 100 + 1
UUGCCCCU---------G-----CACAGCAGGAGGAAGACAAACAUUUU-CCCUUGAGACACAACUUUCAAUAAAUAAAAGCAAAUAUUUGUCAACAUUUCGUGUUUUCGCACUA
.(((.(((---------(-----(...))))).((((((......))))-))...(((((((........(((((((........))))))).........))))))).)))... ( -19.13)
>DroYak_CAF1 201451 100 + 1
UUGCCCCU---------G-----UCCAGCAGGAUGAAGACAAAUAUUUU-CCCUUGAGAUACAACUUUCAAUAAAUAAAAGCAAAUAUUUGUCAACAUUUCGUGUUGUGGCACUC
.......(---------(-----(((((((.((((..(((((((((((.-...((((((......))))))...........)))))))))))..))..)).))))).))))... ( -22.86)
>DroAna_CAF1 21268 113 + 1
UUAUCCCCCCAUCUCCUCCCUCGGGCUGGGGAAA-GAGACAAAAAUUUCACUCCUGGGAAACAACUUUCAAUAAAUAAAAGCAAAUAUUUGUCAACAUUUCGUGUUGUGGAACU-
...(((.(((((((((.((....))..)))))..-((((......)))).....))))..(((((.....(((((((........)))))))..((.....))))))))))...- ( -22.40)
>consensus
UUGCCCCU_________G_____CACAGCAGAAUGAAGACAAAUAUUUU_CCCUUGAGAUACAACUUUCAAUAAAUAAAAGCAAAUAUUUGUCAACAUUUCGUGUUGUGGCACUC
..............................(((((..(((((((((((.....((((((......))))))...........)))))))))))..))))).((((....)))).. (-12.23 = -13.04 +   0.81)

alignment

secondary structure

dotplot

Window 7

Location	20,648,577 – 20,648,682
Length	105
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	80.75
Mean single sequence MFE	-28.03
Consensus MFE	-14.65
Energy contribution	-15.18
Covariance contribution	0.53
Combinations/Pair	1.14
Mean z-score	-2.38
Structure conservation index	0.52
SVM decision value	0.36
SVM RNA-class probability	0.706331
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20648577 105 - 23771897
GAGUGCCACAACACGAAAUGUUGACAAAUAUUUGCUUUUAUUUAUUGAAAGUUGAAUCUCAAGGG-AAAAUAUUUGUCUUCAUUCUGCUGUGCAGGGC---------AGGGGCAA
...((((.........((((..((((((((((((((((((.....)))))))....(((....))-))))))))))))..))))(((((......)))---------)).)))). ( -30.70)
>DroSec_CAF1 21326 87 - 1
GAGUGCCUCAACACGAAAUGUUGACAAAUAUUUGCUUUUAUUUAUUGAAAGUUGUAUCUCAAGGG-AAAAUAUUUGUCUUCAUUCUGC---------------------------
..(((......)))(((.((..((((((((((((((((((.....)))))))....(((....))-))))))))))))..)))))...--------------------------- ( -20.40)
>DroSim_CAF1 24604 105 - 1
GAGUGCCUCAACACGAAAUGUUGACAAAUAUUUGCUUUUAUUUAUUGAAAGUUGUAUCUCAAGGG-AAAAUAUUUGUCUUCAUUCUGCUGUGCAGGGC---------AGGGGCAA
...((((((.......((((..((((((((((((((((((.....)))))))....(((....))-))))))))))))..))))((((...))))...---------.)))))). ( -31.80)
>DroEre_CAF1 10190 100 - 1
UAGUGCGAAAACACGAAAUGUUGACAAAUAUUUGCUUUUAUUUAUUGAAAGUUGUGUCUCAAGGG-AAAAUGUUUGUCUUCCUCCUGCUGUG-----C---------AGGGGCAA
..(((......)))........((((((((((((((((((.....)))))))....(((....))-))))))))))))...(((((((...)-----)---------)))))... ( -27.40)
>DroYak_CAF1 201451 100 - 1
GAGUGCCACAACACGAAAUGUUGACAAAUAUUUGCUUUUAUUUAUUGAAAGUUGUAUCUCAAGGG-AAAAUAUUUGUCUUCAUCCUGCUGGA-----C---------AGGGGCAA
...((((..........(((..((((((((((((((((((.....)))))))....(((....))-))))))))))))..)))((((.....-----)---------))))))). ( -28.20)
>DroAna_CAF1 21268 113 - 1
-AGUUCCACAACACGAAAUGUUGACAAAUAUUUGCUUUUAUUUAUUGAAAGUUGUUUCCCAGGAGUGAAAUUUUUGUCUC-UUUCCCCAGCCCGAGGGAGGAGAUGGGGGGAUAA
-.(((((....(((.(((((((....)))))))(((((((.....)))))))............))).....((..((((-(((((.(.....).)))))))))..))))))).. ( -29.70)
>consensus
GAGUGCCACAACACGAAAUGUUGACAAAUAUUUGCUUUUAUUUAUUGAAAGUUGUAUCUCAAGGG_AAAAUAUUUGUCUUCAUUCUGCUGUG_____C_________AGGGGCAA
..((.((..((((.....))))((((((((((((((((((.....)))))))....((....))...)))))))))))..............................)).)).. (-14.65 = -15.18 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:41 2006