Locus 4466

Sequence ID 3L_DroMel_CAF1
Location 12,960,620 – 12,960,731
Length 111
Max. P 0.591528
window6964

overview

Window 4

Location 12,960,620 – 12,960,731
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.34
Mean single sequence MFE -34.52
Consensus MFE -30.16
Energy contribution -30.20
Covariance contribution 0.04
Combinations/Pair 1.10
Mean z-score -1.22
Structure conservation index 0.87
SVM decision value 0.12
SVM RNA-class probability 0.591528
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12960620 111 + 23771897
CUGGGCGAAAUGGCACAUGUGCGCAGAGCGGAAGACUCGAUUCAUUUC-------AAUCGCAGUGC-AAAAAUUGAGCAUACGCCCUGUCGUACGGAAA-AGUGCACUGCAGACUGACAG
(((...(((((((((....)))...((((....).)))....))))))-------....(((((((-(........((....)).(((.....)))...-..)))))))).......))) ( -33.10)
>DroSec_CAF1 77826 112 + 1
CUGGGCGAAAUGGCACAUGUGUGCAGAGCGGAAGACUCGAUUCAUUUC-------AAUCGCAGUGCGAAAAAUUGAGCAUACGCCCCGUCGUACGGAAA-AGUGCACUGCAGACUGACAG
(((...((((((((((....)))).((((....).)))....))))))-------....((((((((.........((....)).(((.....)))...-..)))))))).......))) ( -37.10)
>DroSim_CAF1 82577 112 + 1
CUGGGCGAAAUGGCACAUGUGUGCAGAGCGGAAGACUCGAUUCAUUUC-------AAUCGCAGUGCGAAAAAUUGAGCAUACGCCCCGUCGUACGGAAA-AGUGCACUGCAGACUGACAG
(((...((((((((((....)))).((((....).)))....))))))-------....((((((((.........((....)).(((.....)))...-..)))))))).......))) ( -37.10)
>DroEre_CAF1 83834 118 + 1
UUGGGCAAAAUGGCACAUGUGUGCAGAGCGGAAGUCUCGACUCAUUUCAAUCUUCAAUCGUAGUGC-AAAAAUUGAGCAUACGCCCCGUCGUACGGUGA-AGUGCACUGCAGACAGACAG
..((((.(((((((((....)))).((((....).)))....)))))............(((.(((-.........)))))))))).(((...(((((.-....)))))..)))...... ( -33.40)
>DroYak_CAF1 81693 112 + 1
CUGGGCAAAAUGGCACAUGUGUGCAGAGCGGAAGUCUCGAUUCAUUUC-------AAUCGUAGUGC-AAAAAUUGAGCAUACGCCCCGUCGUACGGUAAAAGUGCACUGCAGACAGACAG
(((....(((((((((....)))).((((....).)))....))))).-------....(((((((-(........((....)).(((.....)))......))))))))...))).... ( -31.90)
>consensus
CUGGGCGAAAUGGCACAUGUGUGCAGAGCGGAAGACUCGAUUCAUUUC_______AAUCGCAGUGC_AAAAAUUGAGCAUACGCCCCGUCGUACGGAAA_AGUGCACUGCAGACUGACAG
(((...((((((((((....)))).((((....).)))....))))))...........(((((((..........((....)).(((.....))).......))))))).......))) (-30.16 = -30.20 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:59 2006