Locus 2307

Sequence ID X_DroMel_CAF1
Location 6,236,570 – 6,236,755
Length 185
Max. P 0.798200
window3737 window3738

overview

Window 7

Location 6,236,570 – 6,236,675
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.40
Mean single sequence MFE -31.12
Consensus MFE -23.14
Energy contribution -23.30
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.89
Structure conservation index 0.74
SVM decision value 0.39
SVM RNA-class probability 0.718351
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6236570 105 - 22224390
AC--UGGGCCCACAGCUCAUUCCCGAAUCCGAUCAGGUUCGGUCCCAAAAGGAAAUCAAUUCAAAUUAGAUGAAAAUUAUAGUUGAAAUUGCCGGGGG-CG--------CCAUCCU----
..--(((((((.(.((......(((((((......)))))))(((.....)))......(((((....(((....)))....)))))...)).).)))-).--------)))....---- ( -27.90)
>DroSec_CAF1 9553 104 - 1
AC--UGGGCCCACGGCUCAUUCCCGAAUCCGAUCAUGUUCGGUCCCAAAAGGAUAUCAAUUCAAAUUAGAUGAAAAUUAUAGUUGAAAUUGCCGAGGG-CG--------CCCUC-U----
..--.((((((.((((......((((((........))))))(((.....)))......(((((....(((....)))....)))))...)))).)))-).--------))...-.---- ( -29.60)
>DroSim_CAF1 12433 104 - 1
AC--UGGGCCCACGGCUCAUUCCCGAAUCCGAUCAGGUUCGGUCCCAAAAGGAAAUCAAUUCAAAUUAGAUGAAAAUUAUAGUUGAAAUUGCCGAGGG-CG--------CCCUC-U----
..--.((((((.((((......(((((((......)))))))(((.....)))......(((((....(((....)))....)))))...)))).)))-).--------))...-.---- ( -32.50)
>DroEre_CAF1 4268 108 - 1
AC--UGGGCCCACAGCUCAUUCCCGAACCCGAUCAGGUUCGCUCCCAAAAGGAAAUCAAUUCAAAUUAGAUGAAAAUUAUAGUUGAAAUUGCCGGGGG-CG--------CCCUC-UGCUC
..--.((((...............(((((......)))))((((((....((....(((((..((((((((....))).)))))..))))))))))))-))--------)))..-..... ( -30.20)
>DroYak_CAF1 17234 115 - 1
ACUCUGGGCACACAGCUCAUUCCCGAACCCGAUCAGGUUCGGUCCCAAAAGGAAAUCAAUUCAAAUUAGAUGAAAAUUAUAGUUGAAAUUGCCGGGGGGCGGAGAGGGCACCUC-U----
....(((((.....))))).(((((((((......))))))(((((....((....(((((..((((((((....))).)))))..)))))))..))))))))((((...))))-.---- ( -35.40)
>consensus
AC__UGGGCCCACAGCUCAUUCCCGAAUCCGAUCAGGUUCGGUCCCAAAAGGAAAUCAAUUCAAAUUAGAUGAAAAUUAUAGUUGAAAUUGCCGGGGG_CG________CCCUC_U____
....(((((.....)))))...(((((((......))))))).(((....((....(((((..((((((((....))).)))))..)))))))..)))...................... (-23.14 = -23.30 +   0.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 6,236,637 – 6,236,755
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.35
Mean single sequence MFE -38.24
Consensus MFE -31.90
Energy contribution -32.18
Covariance contribution 0.28
Combinations/Pair 1.13
Mean z-score -1.62
Structure conservation index 0.83
SVM decision value 0.61
SVM RNA-class probability 0.798200
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6236637 118 + 22224390
GAACCUGAUCGGAUUCGGGAAUGAGCUGUGGGCCCA--GUAACUGUCUGUGAAUGGCUCAUUUAACGAGGUCAUGCGAUGACACUGGAAUCAUUUCUGGAUCCAUCCAGAGCGAUAAAGU
....(((((.((((((((((((((...(((((((..--...((.....))....)))))))....(.(((((((...))))).)).)..)))))))))))))))).)))........... ( -37.50)
>DroSec_CAF1 9619 116 + 1
GAACAUGAUCGGAUUCGGGAAUGAGCCGUGGGCCCA--GUAACUGCCA--GAAUGGCUCAUUUAACGUGGUCAUGCGAUGACACUCGAAUCAUUUCUGGAUCCAUCCUGAGUGGAAAAGU
...((.((...((((((((((((((((((.(((...--......))).--..))))))))))....((.(((....))).)).))))))))...))))..(((((.....)))))..... ( -40.20)
>DroSim_CAF1 12499 116 + 1
GAACCUGAUCGGAUUCGGGAAUGAGCCGUGGGCCCA--GUAACUGCCA--GAAUGGCUCAUUUAACGUGGUCAUGCGAUGACACUCGAAUCAUUUCUGGAUCCAUCCUGAGCGGAAAAGU
((.((.((...((((((((((((((((((.(((...--......))).--..))))))))))....((.(((....))).)).))))))))...)).)).))..(((.....)))..... ( -40.70)
>DroEre_CAF1 4338 116 + 1
GAACCUGAUCGGGUUCGGGAAUGAGCUGUGGGCCCA--GUAACUGCCA--GAAUGGCUCAUUUAACGGGGUCAUGCGAUGACACUCGAAUCAUUUCUGGAUCCAUCCUCCUCGGAAAAGU
..........(((((((((((((((((((.(((...--......))).--..)))))))))))..(((((((((...))))).))))........)))))))).(((.....)))..... ( -39.10)
>DroYak_CAF1 17309 105 + 1
GAACCUGAUCGGGUUCGGGAAUGAGCUGUGUGCCCAGAGUAACUGCCA--GAAUGGCUCAUUUGACGGGGUCAUGCGAUGACACUCGAAUCAUUUGUGGAUCCA-------------AGU
((((((....))))))(((((((((((((.....(((.....)))...--..)))))))))))..(((((((((...))))).))))..............)).-------------... ( -33.70)
>consensus
GAACCUGAUCGGAUUCGGGAAUGAGCUGUGGGCCCA__GUAACUGCCA__GAAUGGCUCAUUUAACGGGGUCAUGCGAUGACACUCGAAUCAUUUCUGGAUCCAUCCUGAGCGGAAAAGU
..........(((((((((((((((((((.(((...........))).....)))))))))))..(((((((((...))))).))))........))))))))................. (-31.90 = -32.18 +   0.28)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:09 2006