Locus 7130

Sequence ID 3R_DroMel_CAF1
Location 18,776,843 – 18,776,945
Length 102
Max. P 0.984402
window11532 window11533

overview

Window 2

Location 18,776,843 – 18,776,945
Length 102
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 74.67
Mean single sequence MFE -31.88
Consensus MFE -12.16
Energy contribution -14.00
Covariance contribution 1.84
Combinations/Pair 1.05
Mean z-score -2.35
Structure conservation index 0.38
SVM decision value 1.97
SVM RNA-class probability 0.984402
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18776843 102 + 27905053
GACGUGGUACGAGAUGUAGGGGUAC----AUACAUACGUAUGUUCG--AGUACACUCGUCGCAUAUGUGCGAAUCAAAUACGUAUACGUCAUGUUGUCACCCGGUGAA-
((((((.((((..(((((....)))----)).(.(((((((((.((--((....))))..))))))))).).........))))))))))......((((...)))).- ( -30.00)
>DroSec_CAF1 2443 104 + 1
GCCGUGGUACGAGAUGUAUGUACCC----CUACACACAUACGUACAUAUGUACUCUGGUCGCAUAUGUGCGAAUCAAAUACGUAUACGUCAUGUUGUCACCCGGUGAA-
((((.(((((((.(((.(((((..(----...........(((((((((((((....)).)))))))))))..........)..)))))))).)))).)))))))...- ( -33.80)
>DroSim_CAF1 2427 104 + 1
GCCGUGGUACGAGAUGUUGGGGUAC----AUAUGUACAUACGUACAUAUGUACUCUGGUCGCAUAUGUGCGAAUCAAAUACGUAUACGUCAUGUUGUCACCCGGUGAA-
((((.(((((((.((((..((((((----((((((((....))))))))))))))..)(((((....))))).......(((....)))))).)))).)))))))...- ( -44.00)
>DroYak_CAF1 2621 94 + 1
UCUGUGGGACGAUAUG---GGGUAC----AUUUGUAUGUAUGUAC-------CACUGGUCGCAUAUGUGCGAAUCAAAUACGUAUACGUCAUGUUGUCACCCGGUGAA-
.(((.(((((((((((---(.(((.----((((((((((((((((-------(...))).))))))))))))))..........))).)))))))))).)))))....- ( -33.10)
>DroAna_CAF1 3472 100 + 1
GCCGAGAAUCGAGAAUCCAGAACCGACGACGAC-CAACU-AGUA-------ACAUGCGACACAUAUGUGCGAGUCCAAUACGUAUACGUCAUGUUGUCACCCGGUGAAU
((((....((.........))...(((((((..-.....-.((.-------....))(((..(((((((.........)))))))..))).)))))))...)))).... ( -18.50)
>consensus
GCCGUGGUACGAGAUGUAGGGGUAC____AUACAUACAUACGUAC____GUACACUGGUCGCAUAUGUGCGAAUCAAAUACGUAUACGUCAUGUUGUCACCCGGUGAA_
((((.(((((((.(((..........................................(((((....))))).......(((....)))))).)))).))))))).... (-12.16 = -14.00 +   1.84)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,776,843 – 18,776,945
Length 102
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 74.67
Mean single sequence MFE -28.06
Consensus MFE -9.88
Energy contribution -10.96
Covariance contribution 1.08
Combinations/Pair 1.12
Mean z-score -1.84
Structure conservation index 0.35
SVM decision value 0.39
SVM RNA-class probability 0.718321
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18776843 102 - 27905053
-UUCACCGGGUGACAACAUGACGUAUACGUAUUUGAUUCGCACAUAUGCGACGAGUGUACU--CGAACAUACGUAUGUAU----GUACCCCUACAUCUCGUACCACGUC
-......(((((.(((((((.(((((...........(((((....)))))((((....))--))...)))))))))).)----))))))................... ( -26.60)
>DroSec_CAF1 2443 104 - 1
-UUCACCGGGUGACAACAUGACGUAUACGUAUUUGAUUCGCACAUAUGCGACCAGAGUACAUAUGUACGUAUGUGUGUAG----GGGUACAUACAUCUCGUACCACGGC
-....(((((((.(......(((((((.((((((...(((((....)))))...))))))...)))))))(((((((((.----...)))))))))...))))).))). ( -33.50)
>DroSim_CAF1 2427 104 - 1
-UUCACCGGGUGACAACAUGACGUAUACGUAUUUGAUUCGCACAUAUGCGACCAGAGUACAUAUGUACGUAUGUACAUAU----GUACCCCAACAUCUCGUACCACGGC
-....(((((((.....((((((....))).((((..(((((....))))).))))((((((((((((....))))))))----)))).....)))....)))).))). ( -32.70)
>DroYak_CAF1 2621 94 - 1
-UUCACCGGGUGACAACAUGACGUAUACGUAUUUGAUUCGCACAUAUGCGACCAGUG-------GUACAUACAUACAAAU----GUACCC---CAUAUCGUCCCACAGA
-......((((((...((..(((....)))...))..(((((....)))))...(.(-------((((((........))----))))).---)...))).)))..... ( -22.60)
>DroAna_CAF1 3472 100 - 1
AUUCACCGGGUGACAACAUGACGUAUACGUAUUGGACUCGCACAUAUGUGUCGCAUGU-------UACU-AGUUG-GUCGUCGUCGGUUCUGGAUUCUCGAUUCUCGGC
.....(((((.(((((((((.((.((((((((((......)).)))))))))))))))-------)(((-....)-)).)))(((((..........))))).))))). ( -24.90)
>consensus
_UUCACCGGGUGACAACAUGACGUAUACGUAUUUGAUUCGCACAUAUGCGACCAGUGUAC____GUACAUACGUACGUAU____GUACCCCUACAUCUCGUACCACGGC
.....(((((((....((..(((....)))...))..(((((....))))).................................................)))).))). ( -9.88 = -10.96 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:07 2006