Locus 4608

Sequence ID 2L_DroMel_CAF1
Location 13,189,084 – 13,189,201
Length 117
Max. P 0.736956
window7271

overview

Window 1

Location 13,189,084 – 13,189,201
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 81.03
Mean single sequence MFE -39.84
Consensus MFE -28.66
Energy contribution -29.30
Covariance contribution 0.64
Combinations/Pair 1.31
Mean z-score -1.61
Structure conservation index 0.72
SVM decision value 0.44
SVM RNA-class probability 0.736956
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13189084 117 + 22407834
AUCCGCAGGUACAUGGGCCAGCAUCAGCUGGUUGUAAUUAAUGUGCGAGCUUCGCUGGGAGAGCAGUUCCUGGUUAACUCGCCUCAGGUCCACAUGCUCGCAGUUAAGCUUAAAAAC
........((((((.(((((((....))))))).......))))))((((((.((((...(((((((.(((((..........)))))...)).))))).)))).))))))...... ( -39.10)
>DroPse_CAF1 11196 117 + 1
AUCCGCAGGCACAUGGUCAAGCAUUAGCUGCUGAUAGUUGAUGUUGGCAUUCCUUCUGGACAACAGCUCCUGAUUGACGCUAGCAAGGCCGACAUGCUGGCACCUCAGCUUGAACAC
.....(((((.....(((((.((..((((((..(((.....)))..))..(((....)))....))))..)).)))))(((((((.(.....).)))))))......)))))..... ( -39.00)
>DroSec_CAF1 9508 117 + 1
AUCCGCAGGUACAUGGGCCAGCAUUAGCUGGUUGUAAUUAAUGUGUGAGCUUCGCUGGGAGAGCAGCUCCUGGUUAACACGCCUCAGGUUCACAUCCUCGCAGCUAAGCUUAAAAAC
...((((..((((...((((((....)))))))))).....))))(((((((.((((.(((.......(((((..........)))))........))).)))).)))))))..... ( -38.76)
>DroSim_CAF1 9489 117 + 1
AUCCGCAGGUACAUGGGCCAGCAUUAGCUGGUUGUAGUUAAUGUGCGAGCUUCGCUGGGAGAGCAGCUCCUGGUUAACACGCCUCAGGUUCACAUCCUCGCAGCUAAGCUUAAAAAC
...((((.((((...(((((((....)))))))...))..)).))))(((((.((((.(((.......(((((..........)))))........))).)))).)))))....... ( -37.86)
>DroEre_CAF1 9654 117 + 1
AUCCGCAGGCACAUGGGACAGCAUUAGCUGGUUGUAGUUGAUGGGCGAGCUUCGCUGGGAGAGCAGCUCCUGGUUAACUCGCCUCAGGUCCACAUGCUCGCAGCUUAGCUUAAAAAC
....((..(((..((((((..(((((((((....)))))))))((((((.((.((..((((.....))))..)).))))))))....)))).)))))..))................ ( -45.30)
>DroPer_CAF1 11317 117 + 1
AUCCGCAGGCACAUGGUCAAGCAUUAGCUGCUGAUAGUUGAUGUUGGCAUUCCUUCUGGACAACAGCUCCUGAUUGACGCUAGCAAGGCCGACAUGCUGGCACCUCAGCUUGAACAC
.....(((((.....(((((.((..((((((..(((.....)))..))..(((....)))....))))..)).)))))(((((((.(.....).)))))))......)))))..... ( -39.00)
>consensus
AUCCGCAGGCACAUGGGCCAGCAUUAGCUGGUUGUAGUUAAUGUGCGAGCUUCGCUGGGAGAGCAGCUCCUGGUUAACACGCCUCAGGUCCACAUGCUCGCAGCUAAGCUUAAAAAC
....((.((((..((((((.((((((((((....))))))))))(((((.((..(((((((.....)))))))..)))))))....))))))..)))).))................ (-28.66 = -29.30 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:23 2006