Locus 4549

Sequence ID 3R_DroMel_CAF1
Location 12,050,629 – 12,050,737
Length 108
Max. P 0.613910
window7430

overview

Window 0

Location 12,050,629 – 12,050,737
Length 108
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 79.97
Mean single sequence MFE -39.55
Consensus MFE -28.43
Energy contribution -29.75
Covariance contribution 1.31
Combinations/Pair 1.17
Mean z-score -1.59
Structure conservation index 0.72
SVM decision value 0.16
SVM RNA-class probability 0.613910
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12050629 108 - 27905053
UGCAAAGGCUGGUGGCAUAACGUCGCACCUGAUAUCGGCGACUUU-UAUCAGUUGA----------CAGUGAGUCAGGUGCUCUGCGGAGCGAAGCGAC-CACAGUGCCGAACGACCUUU
...((((((...((((((...((((((((((((.(((.(((((..-....))))).----------...))))))))))((((....))))...)))))-....))))))...).))))) ( -40.10)
>DroSim_CAF1 21992 109 - 1
UGCGAAGGCUGGCGGCAUAACGUCGCACCUGAUAUCGCCGACUUUUUUUCAUUUGA----------CAGUGAGUCAGGUGCU-UGCGGAGCGAAGCGACCCACAGUGCCGAACGACCUUU
...((((((...((((((...((((((((((((.((((.(.(............).----------).))))))))))))).-.((........))))).....))))))...).))))) ( -36.10)
>DroYak_CAF1 21733 108 - 1
UGCGAAGGCUGGCGGCGUAACGUCGCACCUGAUAUCGCCGACUUU-UAUCAGUUGA----------CAGUGAGUCAGGUGCUCUGCAGAGCGAAGCGAC-CACAGUGCCGAACGACCUUU
...((((((...(((((....((((((((((((.(((((((((..-....))))).----------..)))))))))))((((....))))...)))))-.....)))))...).))))) ( -42.00)
>DroAna_CAF1 20579 114 - 1
UUUUAAGGCCAGCAG---AUAAUAGCACCUGAUCUUGCCGAUUCU-UAUCAGCCGAACGAAAACAGCGGCGAGUCAGGUGCUUUGC-GAGCAGGGCGAC-CACAGAGCCGAACGACCUUU
......((((.((((---.....(((((((((.(((((((((...-.))).((.(........).)))))))))))))))))))))-.....((....)-)...).)))........... ( -40.00)
>consensus
UGCGAAGGCUGGCGGCAUAACGUCGCACCUGAUAUCGCCGACUUU_UAUCAGUUGA__________CAGUGAGUCAGGUGCUCUGCGGAGCGAAGCGAC_CACAGUGCCGAACGACCUUU
...((((((...((((((...((((((((((((.((((.(........((....))..........).)))))))))))((((....))))...))))).....))))))...).))))) (-28.43 = -29.75 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:04 2006