Locus 8334

Sequence ID	3L_DroMel_CAF1
Location	21,833,664 – 21,833,762
Length	98
Max. P	0.992381

overview

Window 0

Location	21,833,664 – 21,833,762
Length	98
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	85.83
Mean single sequence MFE	-26.26
Consensus MFE	-20.68
Energy contribution	-20.92
Covariance contribution	0.24
Combinations/Pair	1.14
Mean z-score	-1.64
Structure conservation index	0.79
SVM decision value	0.28
SVM RNA-class probability	0.666781
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21833664 98 + 23771897
CCACGCCCCUCAGAUUGUAUCCGUUGACAUUUGACCGACAAAUGUUUGGGACCAAAGGUGUGUGUGGAUAUAUCAAAGAGCGAGUGGGAGAAGAGGGA
((.(.((((((...(((..((((..((((((((.....))))))))))))..))).(((((((....))))))).......))).)))....).)).. ( -26.40)
>DroSec_CAF1 14521 98 + 1
CCACGCCUCUCAGAUUGUAUCCGUUGACAUUUGACCGACAAAUGUUUGUUACCAAAGGUGUGUGUGGAUAUAUCAAAGAGCGAGUGGGAGAAAAGGGA
((((.(((((..(((.(((((((..((((((((.....))))))))...((((...))))....))))))))))..)))).).))))........... ( -27.80)
>DroSim_CAF1 13195 97 + 1
CCACGCCUCUCAGAUUGUAUCCGUUGACAUUUGACCGACA-AUAUUUGUUACCAAAGGUGUGUGUGGAUAUAUCAAAGAGCGAGUGGGAGAAAAGGGA
((((.(((((..(((.(((((((...((((((....((((-.....)))).....))))))...))))))))))..)))).).))))........... ( -25.60)
>DroEre_CAF1 13653 85 + 1
CCACGCCUCUCAGAUUGUAUCCGUUGACAUUUGACCGACAAAUGUUUGGGAGCAAAGGUGU----GGAUAUAUCAAAGAGAGAGUGGGA---------
((((..(((((...((((.((((..((((((((.....)))))))))))).)))).(((((----....)))))...))))).))))..--------- ( -29.30)
>DroYak_CAF1 8583 92 + 1
CCACAACUCUCAGAUUGUAUCCAUUGAUAUUUGACCGACAAAUGCUUGGAACCAAAAGUGU---UGGAUAUCUCAAAGAGAUAGUGAGAGAA---GGA
......((((((....(((((....)))))....((((((.....(((....)))...)))---))).((((((...)))))).))))))..---... ( -22.20)
>consensus
CCACGCCUCUCAGAUUGUAUCCGUUGACAUUUGACCGACAAAUGUUUGGGACCAAAGGUGUGUGUGGAUAUAUCAAAGAGCGAGUGGGAGAA_AGGGA
((((.(((((..(((.(((((((...((((((......(((....))).......))))))...))))))))))..)))).).))))........... (-20.68 = -20.92 +   0.24)

alignment

secondary structure

dotplot

Window 1

Location	21,833,664 – 21,833,762
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	85.83
Mean single sequence MFE	-23.20
Consensus MFE	-21.46
Energy contribution	-21.14
Covariance contribution	-0.32
Combinations/Pair	1.18
Mean z-score	-2.21
Structure conservation index	0.92
SVM decision value	2.32
SVM RNA-class probability	0.992381
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21833664 98 - 23771897
UCCCUCUUCUCCCACUCGCUCUUUGAUAUAUCCACACACACCUUUGGUCCCAAACAUUUGUCGGUCAAAUGUCAACGGAUACAAUCUGAGGGGCGUGG
...........((((..((((((((((.(((((..........(((....)))(((((((.....)))))))....)))))..))).))))))))))) ( -25.00)
>DroSec_CAF1 14521 98 - 1
UCCCUUUUCUCCCACUCGCUCUUUGAUAUAUCCACACACACCUUUGGUAACAAACAUUUGUCGGUCAAAUGUCAACGGAUACAAUCUGAGAGGCGUGG
...........((((.(.(((((.(((.(((((......(((...))).....(((((((.....)))))))....)))))..))).)))))).)))) ( -25.00)
>DroSim_CAF1 13195 97 - 1
UCCCUUUUCUCCCACUCGCUCUUUGAUAUAUCCACACACACCUUUGGUAACAAAUAU-UGUCGGUCAAAUGUCAACGGAUACAAUCUGAGAGGCGUGG
...........((((.(.(((((.(((.(((((.........((((....))))..(-((.((......)).))).)))))..))).)))))).)))) ( -21.40)
>DroEre_CAF1 13653 85 - 1
---------UCCCACUCUCUCUUUGAUAUAUCC----ACACCUUUGCUCCCAAACAUUUGUCGGUCAAAUGUCAACGGAUACAAUCUGAGAGGCGUGG
---------..((((((((((...(((.(((((----......(((....)))(((((((.....)))))))....)))))..))).)))))).)))) ( -24.50)
>DroYak_CAF1 8583 92 - 1
UCC---UUCUCUCACUAUCUCUUUGAGAUAUCCA---ACACUUUUGGUUCCAAGCAUUUGUCGGUCAAAUAUCAAUGGAUACAAUCUGAGAGUUGUGG
...---......(((...(((((.((..((((((---.....((((....)))).(((((.....))))).....))))))...)).)))))..))). ( -20.10)
>consensus
UCCCU_UUCUCCCACUCGCUCUUUGAUAUAUCCACACACACCUUUGGUACCAAACAUUUGUCGGUCAAAUGUCAACGGAUACAAUCUGAGAGGCGUGG
...........((((.(.(((((.(((.(((((..........(((....)))(((((((.....)))))))....)))))..))).)))))).)))) (-21.46 = -21.14 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:53 2006