Locus 8317

Sequence ID	3L_DroMel_CAF1
Location	21,787,134 – 21,787,297
Length	163
Max. P	0.958626

overview

Window 1

Location	21,787,134 – 21,787,229
Length	95
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	88.97
Mean single sequence MFE	-28.97
Consensus MFE	-17.66
Energy contribution	-18.42
Covariance contribution	0.75
Combinations/Pair	1.21
Mean z-score	-4.69
Structure conservation index	0.61
SVM decision value	0.61
SVM RNA-class probability	0.797544
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21787134 95 + 23771897
AAUUUUUGCAUAUUUCUGCGUAG-----CCAUGUAAAUGGCACGGGAAAAUUGCUGAGGAGAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCGGCUAU
..(((((((.(((((((.(...(-----((((....))))).(((........))).).)).))))).))))))).....(((((((....))))))).. ( -30.50)
>DroSec_CAF1 6623 95 + 1
AAUUUUUGCAUAUUUCUGCGUAG-----CCAUGUAAAUGGCACGGGAAAAUUGCUGAAAAGAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCGGCUAU
..(((((((...(((((.(((.(-----((((....)))))))))))))....((....)).......))))))).....(((((((....))))))).. ( -31.10)
>DroSim_CAF1 11889 95 + 1
AAUUUUUGCAUAUUUCUGCGUAG-----CCAUGUAAAUGGCACGGGAAAAUUGCUGAGAAGAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCGGCUAU
..(((((((...(((((.(((.(-----((((....)))))))))))))....((....)).......))))))).....(((((((....))))))).. ( -29.60)
>DroEre_CAF1 12753 95 + 1
AAUUUUUGCAUAUUUUUGCGUAG-----CCAUGUAAAUGGCACGGGAAAAUUGGUGAGAAGAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCGGCUAU
..((((..(..((((((.(((.(-----((((....)))))))).))))))..)..))))....................(((((((....))))))).. ( -30.50)
>DroYak_CAF1 12628 95 + 1
AAUUUUUGCAUAUUUUUGCGUAC-----CCAUGUAAAUGGCACGGGAAAAUUGCUGAGAAGAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCAGCUAU
..(((((((.((((((((((..(-----((.(((.....))).))).....)))......))))))).))))))).....(((((((....))))))).. ( -27.20)
>DroAna_CAF1 17116 97 + 1
AGC-UUCGCGUAUUUUUGCGUAGCAGUGCCAUCUAAAUGGCAAGGGAG-AUGGCGGCGGAAGAAAUAAGCGAGAAAUAAAAGA-GAAAAAUCCCAGCUAU
(((-(((((.(((((((.....((...(((((((...(....)...))-))))).))...))))))).)))).........((-......))..)))).. ( -24.90)
>consensus
AAUUUUUGCAUAUUUCUGCGUAG_____CCAUGUAAAUGGCACGGGAAAAUUGCUGAGAAGAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCGGCUAU
..(((((((.(((((((.(.........((((....))))..(((........))).).))).)))).))))))).....(((((((....))))))).. (-17.66 = -18.42 +   0.75)

alignment

secondary structure

dotplot

Window 2

Location	21,787,189 – 21,787,297
Length	108
Sequences	4
Columns	108
Reading direction	forward
Mean pairwise identity	98.15
Mean single sequence MFE	-29.15
Consensus MFE	-27.94
Energy contribution	-28.00
Covariance contribution	0.06
Combinations/Pair	1.05
Mean z-score	-3.57
Structure conservation index	0.96
SVM decision value	1.49
SVM RNA-class probability	0.958626
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21787189 108 + 23771897
GAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCGGCUAUAAAUACACGACGUCAGCGAACGGCGACAACGACAACUACACGCUGGCACUCCUAAGUGCCCCCCAAUC
.......((((.........(((((((....))))))).........((..(((.((.....)))))..)).........))))((((((....))))))........ ( -30.40)
>DroSec_CAF1 6678 108 + 1
GAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCGGCUAUAAAUACACGACAUCAGCGAACGGCGACAACGACAACUACACGCUGGCACUCCUAAGUGCCCCCCAAUC
.......((((.........(((((((....))))))).........((...((.((.....))))...)).........))))((((((....))))))........ ( -26.10)
>DroSim_CAF1 11944 108 + 1
GAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCGGCUAUAAAUACACGACGUCAGCGAACGGCGACAACGACAACUACACGCUGGCACUCCUAAGUGCCCCCCAAUC
.......((((.........(((((((....))))))).........((..(((.((.....)))))..)).........))))((((((....))))))........ ( -30.40)
>DroYak_CAF1 12683 108 + 1
GAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCAGCUAUAAAUACACGACGUCAGCGAACGGCGACAAAGACAACUACACGCUGGCACUCCUAAGUGCCCCCCGAUC
.......((((.........(((((((....))))))).............(((.((.....))))).............))))((((((....))))))........ ( -29.70)
>consensus
GAAAAUAAGCGAAAAAUAAAAGCUGAGAAAUCUCGGCUAUAAAUACACGACGUCAGCGAACGGCGACAACGACAACUACACGCUGGCACUCCUAAGUGCCCCCCAAUC
.......((((.........(((((((....))))))).............(((.((.....))))).............))))((((((....))))))........ (-27.94 = -28.00 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:26 2006