Locus 902

Sequence ID	3L_DroMel_CAF1
Location	2,730,038 – 2,730,131
Length	93
Max. P	0.999786

overview

Window 7

Location	2,730,038 – 2,730,131
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	92.93
Mean single sequence MFE	-23.58
Consensus MFE	-20.50
Energy contribution	-20.54
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-3.07
Structure conservation index	0.87
SVM decision value	4.08
SVM RNA-class probability	0.999786
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2730038 93 + 23771897
ACAGCGGUUUGAUUGAAACGCUGAUUGUUGGAGCGUAGCAAAUAUUUACAAAUGUAAACCAGGGGGAAAAAAAAAACAACUAAGCCGCACAAA
...((((((((.(((..(((((.........)))))........(((((....)))))((....))..........))).))))))))..... ( -21.30)
>DroSec_CAF1 89963 89 + 1
ACAGCGGUUUGAUUGAAACGCUGAUUGUUGGAGCGUAGCAAAUAUUUACAAAUGUAAACCAGUGCGGAA----AAACAACUAAGCCGCACAAA
...((((((((.(((..(((((.........))))).(((....(((((....)))))....)))....----...))).))))))))..... ( -25.50)
>DroSim_CAF1 88318 89 + 1
ACAGCGGUUUGAUUGAAACGCUGAUUGUUGGAGCGUAGCAAAUAUUUACAAAUGUAAACCAGUGCGGAA----AAACAACUAAGCCGCACAAA
...((((((((.(((..(((((.........))))).(((....(((((....)))))....)))....----...))).))))))))..... ( -25.50)
>DroEre_CAF1 98534 88 + 1
ACAGCGGUUUGAUUGAAACGCUGAUUGUUGGAGCGUAGCAAAUAUUUACAAUUGUAAACCAGGG-UAAA----AAUCAACUAAGCCGCACAAA
...((((((((.((((.((.(((.((((((.....))))))...(((((....))))).))).)-)...----..)))).))))))))..... ( -23.40)
>DroYak_CAF1 91905 88 + 1
ACAGCGGUUUGAUUGAAACGCUGAUUGUUGGAGCGUAGCAAAUAUUUACAAAUGUAAACCAGGC-UAAA----AAUCAACUAUACCGCACAAA
...(((((.((.((((.(((((.........)))))(((.....(((((....)))))....))-)...----..)))).)).)))))..... ( -22.20)
>consensus
ACAGCGGUUUGAUUGAAACGCUGAUUGUUGGAGCGUAGCAAAUAUUUACAAAUGUAAACCAGGG_GAAA____AAACAACUAAGCCGCACAAA
...((((((((.(((..(((((.........)))))..)))...(((((....)))))......................))))))))..... (-20.50 = -20.54 +   0.04)

alignment

secondary structure

dotplot

Window 8

Location	2,730,038 – 2,730,131
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	92.93
Mean single sequence MFE	-19.44
Consensus MFE	-16.14
Energy contribution	-16.14
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.74
Structure conservation index	0.83
SVM decision value	1.11
SVM RNA-class probability	0.916410
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2730038 93 - 23771897
UUUGUGCGGCUUAGUUGUUUUUUUUUUCCCCCUGGUUUACAUUUGUAAAUAUUUGCUACGCUCCAACAAUCAGCGUUUCAAUCAAACCGCUGU
.....((((.........................((((((....))))))..(((..(((((.........)))))..))).....))))... ( -16.10)
>DroSec_CAF1 89963 89 - 1
UUUGUGCGGCUUAGUUGUUU----UUCCGCACUGGUUUACAUUUGUAAAUAUUUGCUACGCUCCAACAAUCAGCGUUUCAAUCAAACCGCUGU
.....((((.((.((((...----....(((...((((((....))))))...))).(((((.........)))))..)))).)).))))... ( -20.10)
>DroSim_CAF1 88318 89 - 1
UUUGUGCGGCUUAGUUGUUU----UUCCGCACUGGUUUACAUUUGUAAAUAUUUGCUACGCUCCAACAAUCAGCGUUUCAAUCAAACCGCUGU
.....((((.((.((((...----....(((...((((((....))))))...))).(((((.........)))))..)))).)).))))... ( -20.10)
>DroEre_CAF1 98534 88 - 1
UUUGUGCGGCUUAGUUGAUU----UUUA-CCCUGGUUUACAAUUGUAAAUAUUUGCUACGCUCCAACAAUCAGCGUUUCAAUCAAACCGCUGU
.((((..(((.((((.(((.----((((-(..((.....))...))))).))).)))).)))...)))).((((((((.....))).))))). ( -19.00)
>DroYak_CAF1 91905 88 - 1
UUUGUGCGGUAUAGUUGAUU----UUUA-GCCUGGUUUACAUUUGUAAAUAUUUGCUACGCUCCAACAAUCAGCGUUUCAAUCAAACCGCUGU
.....(((((.(.(((((..----..((-((...((((((....))))))....))))((((.........))))..))))).).)))))... ( -21.90)
>consensus
UUUGUGCGGCUUAGUUGUUU____UUUC_CCCUGGUUUACAUUUGUAAAUAUUUGCUACGCUCCAACAAUCAGCGUUUCAAUCAAACCGCUGU
.....((((.........................((((((....))))))..(((..(((((.........)))))..))).....))))... (-16.14 = -16.14 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:00 2006