Locus 2847

Sequence ID	3L_DroMel_CAF1
Location	8,127,360 – 8,127,452
Length	92
Max. P	0.999953

overview

Window 9

Location	8,127,360 – 8,127,452
Length	92
Sequences	4
Columns	109
Reading direction	forward
Mean pairwise identity	65.51
Mean single sequence MFE	-22.48
Consensus MFE	-14.48
Energy contribution	-13.97
Covariance contribution	-0.50
Combinations/Pair	1.38
Mean z-score	-2.52
Structure conservation index	0.64
SVM decision value	4.04
SVM RNA-class probability	0.999770
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8127360 92 + 23771897
--------GGC---UUAAAAUAUUUAGUAAAAUAAAAAAG------AAGAUCAUUCUUCUCAGUGCAGCGGCAGUAGCAGCAGCAUUACUAGCAAUAAUGCUGCACUGC
--------...---........................((------((((....))))))((((((((((((((((((....))..)))).)).....)))))))))). ( -25.50)
>DroSec_CAF1 24095 91 + 1
--------G-G---UUAAAAUAUUUAUUAAAAUGAACAAG------AAGAUAAUUGUUCUCAGUGCAGCGGCAGUAGCAGCAGCAUUAAUAGCAAUAAUGCUGCACUGC
--------.-.---...................((((((.------.......)))))).((((((.((.((....)).))(((((((.......))))))))))))). ( -24.70)
>DroYak_CAF1 24393 100 + 1
AUACUUAAGGCUUCUAAAAAUAUUU--UCAAAGGAAAAAAUAUAUU-------UUUUUUCCUGUGCAGUGGCAGUAGCAGCAGCCUUAAUAGCAAUAAUGCUGCACUGC
....((((((((.((..........--....(((((((((......-------))))))))).(((....))).....)).))))))))(((((....)))))...... ( -25.00)
>DroAna_CAF1 22898 91 + 1
---------GC---UUCCUGUUUUUUUUCAAAUAUUAGUU------UGGAUUAUUUCUCCCAGUGUACUAGUAGCUGCCACAGCAUUAAUAGUAAUAACACUGCACUGC
---------..---............(((((((....)))------))))..........((((((((((...((((...)))).....))))....))))))...... ( -14.70)
>consensus
________GGC___UUAAAAUAUUUAUUAAAAUAAAAAAG______AAGAU_AUUUUUCCCAGUGCAGCGGCAGUAGCAGCAGCAUUAAUAGCAAUAAUGCUGCACUGC
............................................................(((((((((.((....))....((.......))......))))))))). (-14.48 = -13.97 +  -0.50)

alignment

secondary structure

dotplot

Window 0

Location	8,127,360 – 8,127,452
Length	92
Sequences	4
Columns	109
Reading direction	reverse
Mean pairwise identity	65.51
Mean single sequence MFE	-24.50
Consensus MFE	-15.06
Energy contribution	-14.88
Covariance contribution	-0.19
Combinations/Pair	1.29
Mean z-score	-3.15
Structure conservation index	0.61
SVM decision value	4.81
SVM RNA-class probability	0.999953
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8127360 92 - 23771897
GCAGUGCAGCAUUAUUGCUAGUAAUGCUGCUGCUACUGCCGCUGCACUGAGAAGAAUGAUCUU------CUUUUUUAUUUUACUAAAUAUUUUAA---GCC--------
(((((((((((.(((((....))))).)))))).))))).(((.....(((((((....))))------)))...(((((....))))).....)---)).-------- ( -28.10)
>DroSec_CAF1 24095 91 - 1
GCAGUGCAGCAUUAUUGCUAUUAAUGCUGCUGCUACUGCCGCUGCACUGAGAACAAUUAUCUU------CUUGUUCAUUUUAAUAAAUAUUUUAA---C-C--------
((((((((((((((.......))))))))).((....)).))))).....((((((.......------.))))))...................---.-.-------- ( -26.20)
>DroYak_CAF1 24393 100 - 1
GCAGUGCAGCAUUAUUGCUAUUAAGGCUGCUGCUACUGCCACUGCACAGGAAAAAA-------AAUAUAUUUUUUCCUUUGA--AAAUAUUUUUAGAAGCCUUAAGUAU
(((((((((((.....(((.....))))))))).))))).....((.(((((((((-------......))))))))).)).--..((((((..((....)).)))))) ( -27.20)
>DroAna_CAF1 22898 91 - 1
GCAGUGCAGUGUUAUUACUAUUAAUGCUGUGGCAGCUACUAGUACACUGGGAGAAAUAAUCCA------AACUAAUAUUUGAAAAAAAACAGGAA---GC---------
((...(((((((((.......))))))))).)).(((.((.((......(((.......))).------........(((....))).)).)).)---))--------- ( -16.50)
>consensus
GCAGUGCAGCAUUAUUGCUAUUAAUGCUGCUGCUACUGCCACUGCACUGAGAAAAAU_AUCUU______CUUUUUCAUUUGAAUAAAUAUUUUAA___GCC________
((((((((((((((.......)))))))))....)))))...................................................................... (-15.06 = -14.88 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:16 2006