Locus 3750

Sequence ID	2L_DroMel_CAF1
Location	10,899,095 – 10,899,212
Length	117
Max. P	0.879929

overview

Window 6

Location	10,899,095 – 10,899,212
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	80.60
Mean single sequence MFE	-22.64
Consensus MFE	-15.00
Energy contribution	-15.24
Covariance contribution	0.24
Combinations/Pair	1.14
Mean z-score	-2.06
Structure conservation index	0.66
SVM decision value	0.91
SVM RNA-class probability	0.879929
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10899095 117 + 22407834
AUUAUAAGCACAUACAAAGAAUGUGACCUACCUCAAUUUUCUCGCUUACGACUCUUGUUAGCCUAAGUUGGCCAAAUUAAUUAUACACAUUUAUUUGGCCAACUUACUUCCAC---AGAC
.(..(((((((((.......))))((......)).........)))))..).(((((..((..((((((((((((((.(((.......))).))))))))))))))))..)).---))). ( -26.60)
>DroSec_CAF1 38717 116 + 1
AUUA-GAGCACGUAUAUAGAUUGUGACCUACCUGAAUAUUCUCGCUUACGCCUCUUGUUAGUCUAAGUUGACCAAAUUAAUUAUACACAUUUAUUUGGCCAACUUCCUUCCAG---CGAC
....-(((..((((...(((.(((...........))).)))....)))).)))(((((.(...((((((.((((((.(((.......))).)))))).))))))....).))---))). ( -19.30)
>DroSim_CAF1 40037 116 + 1
AUUA-GAGAACGUACAUAGAUUGUGACCUACCUGAAUAUUCUCGCUUACGCCUCUUGUUAGCCUAAGUUGGCCAAAUUAAUUAUACACAUUUAUUUGGCCAACUUCCUUCCAG---CGAC
....-(((((..(.(((((........)))..)).)..))))).....(((....((..((...(((((((((((((.(((.......))).))))))))))))).))..)))---)).. ( -27.80)
>DroEre_CAF1 38977 103 + 1
-----UAGCACGC--AUAGAAUU-----UGCCUCAAUUUUCUCGGUUACAA--CUUGUUAGCCCAAGUUGGUCAAAUUAAUUAUACACAUUUAUUUGGCCAAGUUGCUUCCAC---CGAC
-----......((--(.......-----)))..........(((((.....--...(..(((..((.((((((((((.(((.......))).)))))))))).)))))..)))---))). ( -20.20)
>DroYak_CAF1 39726 113 + 1
-----UAGCAUGCACAUAUAAUUUUACUUACCUCAAUUUUCCCGCUUACGU--UAUGUUAGCCAAAGUUGGUCAAAUGAAUUAUACACAUUUAUUUGGCCAAGUUCCUUCCACCGCCGAC
-----..((..................................(((.((..--...)).)))..((.((((((((((((((.......)))))))))))))).)).........)).... ( -19.30)
>consensus
AUUA_GAGCACGUACAUAGAAUGUGACCUACCUCAAUUUUCUCGCUUACGACUCUUGUUAGCCUAAGUUGGCCAAAUUAAUUAUACACAUUUAUUUGGCCAACUUCCUUCCAC___CGAC
...........................................(((.(((.....))).)))..(((((((((((((.(((.......))).)))))))))))))............... (-15.00 = -15.24 +   0.24)

alignment

secondary structure

dotplot

Window 7

Location	10,899,095 – 10,899,212
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	80.60
Mean single sequence MFE	-28.66
Consensus MFE	-15.88
Energy contribution	-16.92
Covariance contribution	1.04
Combinations/Pair	1.23
Mean z-score	-1.86
Structure conservation index	0.55
SVM decision value	0.02
SVM RNA-class probability	0.541987
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10899095 117 - 22407834
GUCU---GUGGAAGUAAGUUGGCCAAAUAAAUGUGUAUAAUUAAUUUGGCCAACUUAGGCUAACAAGAGUCGUAAGCGAGAAAAUUGAGGUAGGUCACAUUCUUUGUAUGUGCUUAUAAU
.(((---.(((...((((((((((((((.(((.......))).))))))))))))))..)))...))).(((....)))..........(((((.(((((.......))))))))))... ( -34.50)
>DroSec_CAF1 38717 116 - 1
GUCG---CUGGAAGGAAGUUGGCCAAAUAAAUGUGUAUAAUUAAUUUGGUCAACUUAGACUAACAAGAGGCGUAAGCGAGAAUAUUCAGGUAGGUCACAAUCUAUAUACGUGCUC-UAAU
....---.((..((.(((((((((((((.(((.......))).)))))))))))))...))..))(((((((((...(((....)))..((((((....)))))).))))).)))-)... ( -30.90)
>DroSim_CAF1 40037 116 - 1
GUCG---CUGGAAGGAAGUUGGCCAAAUAAAUGUGUAUAAUUAAUUUGGCCAACUUAGGCUAACAAGAGGCGUAAGCGAGAAUAUUCAGGUAGGUCACAAUCUAUGUACGUUCUC-UAAU
.((.---.((..((.(((((((((((((.(((.......))).)))))))))))))...))..)).)).((....))((((((....(.((((((....)))))).)..))))))-.... ( -35.00)
>DroEre_CAF1 38977 103 - 1
GUCG---GUGGAAGCAACUUGGCCAAAUAAAUGUGUAUAAUUAAUUUGACCAACUUGGGCUAACAAG--UUGUAACCGAGAAAAUUGAGGCA-----AAUUCUAU--GCGUGCUA-----
.(((---((....((((((((..(((((.(((.......))).))))).((.....)).....))))--)))).))))).........((((-----..(.....--)..)))).----- ( -22.70)
>DroYak_CAF1 39726 113 - 1
GUCGGCGGUGGAAGGAACUUGGCCAAAUAAAUGUGUAUAAUUCAUUUGACCAACUUUGGCUAACAUA--ACGUAAGCGGGAAAAUUGAGGUAAGUAAAAUUAUAUGUGCAUGCUA-----
...((((((.((......)).)))......((((((((((((.(((((.((((.(((.(((.((...--..)).))).)))...))).).)))))..))))))))..))))))).----- ( -20.20)
>consensus
GUCG___GUGGAAGGAAGUUGGCCAAAUAAAUGUGUAUAAUUAAUUUGGCCAACUUAGGCUAACAAGAGGCGUAAGCGAGAAAAUUGAGGUAGGUCACAUUCUAUGUACGUGCUA_UAAU
........(((...((((((((((((((.(((.......))).))))))))))))))..)))..........................((((.((............)).))))...... (-15.88 = -16.92 +   1.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:09 2006