Locus 2131

Sequence ID 3L_DroMel_CAF1
Location 5,821,296 – 5,821,388
Length 92
Max. P 0.540229
window3319

overview

Window 9

Location 5,821,296 – 5,821,388
Length 92
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 79.79
Mean single sequence MFE -16.99
Consensus MFE -12.00
Energy contribution -12.80
Covariance contribution 0.80
Combinations/Pair 1.20
Mean z-score -1.47
Structure conservation index 0.71
SVM decision value 0.01
SVM RNA-class probability 0.540229
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5821296 92 + 23771897
ACAGGUACUUACCCUACUUAUCGAAACAAACCAGCUGAUAAGAGCGCAAAAAA-----AAA-ACGCUACCAAAUGAUAGUGUUCUUAUCGAUUGGGCC
...(((....))).................((((.((((((((((((......-----...-................)))))))))))).))))... ( -20.11)
>DroSec_CAF1 29104 88 + 1
UCAGGUACUUACCCUACUUACCG-------CCAGCUGAUAAGAGUGCAAAAAACAAAACAA-ACGCUACCAAAUGA--GUGUUCUUAUCGAUUGGGCC
...((((...........)))).-------((((.((((((((((.......)).......-(((((........)--)))))))))))).))))... ( -18.30)
>DroSim_CAF1 11495 90 + 1
UCAGGUACUUACCCUACUUACCG-------CCAGCUGAUAAGAGCGCAAAAAACAAAACAA-ACGCUACCAAAUGAUAGUGUUCUUAUCGAUUGGGCU
...((((...........))))(-------((...((((((((((((..............-................))))))))))))....))). ( -20.61)
>DroEre_CAF1 29572 98 + 1
ACAGGUACUUACCCUACUUACCGCAACUAGCCAGCUGGCAACACAACCCAAAGCAAAACAAAACGCUACCAACUGAUAGUGUUCUUAUCGAUUAGCCC
...((((...........))))((.....(((....)))......................(((((((.(....).)))))))...........)).. ( -14.30)
>DroYak_CAF1 31675 89 + 1
ACAGGUACUUACCCUACUUACCGCAACAAGCCAGCUGAUAAGACCGC-AAAAACAAAACAAAA--------AAUGAUAGUGUUCUUAUCGAUUAGACA
...((((...........))))((.....))....((((((((.(((-...............--------.......))).))))))))........ ( -11.65)
>consensus
ACAGGUACUUACCCUACUUACCG_AAC_A_CCAGCUGAUAAGAGCGCAAAAAACAAAACAA_ACGCUACCAAAUGAUAGUGUUCUUAUCGAUUGGGCC
...((((...........))))........((((.((((((((((((...............................)))))))))))).))))... (-12.00 = -12.80 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:09 2006