Locus 6692

Sequence ID 3R_DroMel_CAF1
Location 17,603,353 – 17,603,460
Length 107
Max. P 0.648176
window10879

overview

Window 9

Location 17,603,353 – 17,603,460
Length 107
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 78.49
Mean single sequence MFE -31.77
Consensus MFE -19.52
Energy contribution -20.22
Covariance contribution 0.70
Combinations/Pair 1.25
Mean z-score -1.53
Structure conservation index 0.61
SVM decision value 0.24
SVM RNA-class probability 0.648176
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17603353 107 - 27905053
UUUGCCCCUCCUGCGGCUCCAUUCUGCCCGAGCUUCAAGUCAAGGGCAAUGUGAUUUGCUACAACUGCAAGAAGGAGUUUCAGCCAGAUGGUAAAUCC-------AGAAAUUAC
((((((.((.(((..(((((.((((((((..((.....))...))))).......((((.......))))))))))))..)))..))..))))))...-------......... ( -30.30)
>DroGri_CAF1 7589 114 - 1
UUUGUCCGUCCUGUGGCUCAAUUUUGCCACCUCUGCAAGUGAAAGGCAAUGUCUUUUGCUUCAACUGCAAACAGGAGUUCUCACCAGAUGGUAAACUAUUCAAAUAUCCACUAU
((((.(((((..(((((........)))))(((((.(((..((((((...))))))..))))).(((....)))))).........)))))))))................... ( -28.30)
>DroSec_CAF1 5796 107 - 1
UUUGUCCCUCCUGCGGCUCCAUUCUGCCCGAGCUGCAAGUCAAGGGCAAUGUGAUUUGCUGCAACUGCAAGCAGGAGUUUCAGCCAGAUGGUAAAUCC-------AGAAGUUAC
.((((((..(.((((((((..........)))))))).)....)))))).(((((((((((.((((.(.....).)))).))))....(((.....))-------).))))))) ( -33.20)
>DroSim_CAF1 5734 107 - 1
UUUGUCCCUCCUGCGGCUCCAUUCUGCCCGAGCUGCAAGUCAAGGGCAAUGUGUUUUGCUGCAACUGCAAGCAGGAGUUUCAGCCAGAUGGUAAAUCC-------AGAAAUUAC
((((...((((((((((..(((..(((((..((.....))...)))))..)))....)))((....))..))))))).....(((....))).....)-------)))...... ( -32.20)
>DroYak_CAF1 5716 107 - 1
UUUGUCCUUCCUGCGGCUCCAUUCUGCCCGAGCUGCAAGUGAAGGGCAACGUGAUUUGCUGCAAUUGCAGGCAGGAGUUUCAGCCAGACGGUAAAAAC-------AGAAUUUUA
.((((((((((((((((((..........))))))).)).))))))))).....((((((((....))).))))).((((..(((....)))..))))-------......... ( -37.50)
>DroMoj_CAF1 6026 112 - 1
UCUGUCCGUCCUGCGGAUCAAUUCUGCCACCGCUGCAAGUCAAAGGAAACGUAUUUUGUUAUAACUGUAAACAAGAGUUCUCCCCAGAUGGUAAGAUACGG--AUAGAAACUGA
(((((((((...(((((.....))))).(((((((.........(....)...(((((((.........)))))))........))).)))).....))))--)))))...... ( -29.10)
>consensus
UUUGUCCCUCCUGCGGCUCCAUUCUGCCCGAGCUGCAAGUCAAGGGCAAUGUGAUUUGCUGCAACUGCAAGCAGGAGUUUCAGCCAGAUGGUAAAUCC_______AGAAAUUAC
.......((((((((((........))).....((((.((....(((((......)))))...)))))).))))))).....(((....)))...................... (-19.52 = -20.22 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:42 2006