Locus 461

Sequence ID 3R_DroMel_CAF1
Location 1,742,332 – 1,742,431
Length 99
Max. P 0.636525
window749

overview

Window 9

Location 1,742,332 – 1,742,431
Length 99
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 69.25
Mean single sequence MFE -13.56
Consensus MFE -7.79
Energy contribution -9.23
Covariance contribution 1.44
Combinations/Pair 1.07
Mean z-score -1.31
Structure conservation index 0.57
SVM decision value 0.21
SVM RNA-class probability 0.636525
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1742332 99 + 27905053
UUCCCGCCCAC-CUUUCCACCUC----UCUCAUCCCCAUUUUUCCCUGACAACCCCAACAGGGGUGCAUGCACAUUUUUUGCAAGUGCAGUAAAUGAAUUUUUU
...........-...........----.........(((((....(((((.(((((....)))))...((((.......)))).)).))).)))))........ ( -16.40)
>DroSec_CAF1 51396 99 + 1
UUCCCGCCCGC-UUUUCCAUCUC----CCUCAUCCCCAUUUCCCCCCACAAACCCCAACAGGGGUGCAUGCACAUUUUUUGCAAAUGCAGCAAAUGAAUUUUUU
.........((-(..........----........................(((((....)))))(((((((.......))))..))))))............. ( -16.60)
>DroSim_CAF1 52600 99 + 1
UUCCCGCCCGC-UUUUCCAUCUC----CCUCAUCCCCAUUUCCCCCCACAAACCCCAACAGGGGUGCAUGCACAUUUUUUGCAAAUGCAGCAAAUGAAUUUUUU
.........((-(..........----........................(((((....)))))(((((((.......))))..))))))............. ( -16.60)
>DroEre_CAF1 50139 88 + 1
UUUCCGCC-GC-UUUUCCACCCC------------UCAUUUCCCC-AGAC-AGCCCAACUCGGCUACAAGAACAUUUUUUGCAAAUGCAGCAAAUGAACUUUUU
........-..-...........------------..........-....-((((......)))).......(((((.((((....)))).)))))........ ( -12.00)
>DroYak_CAF1 51877 76 + 1
UUCCCGCC-GC-GCU-----------------------UUUCCCC-CGAC-CCCCCAGCUGG-GUGCAUGAACAUUUUUCGCAAAUGCAGCAAAUGAAUUUUUU
.....((.-((-(..-----------------------.......-....-..(((....))-)(((..(((.....))))))..))).))............. ( -10.30)
>DroPer_CAF1 46036 92 + 1
GU--UGCCUACACUUUCUACCCCCAUGCCUCACCCUCAC-----CCU---CACCCC-GUU-GACAGUACGAAAAUUUUUUGCAAGUGCUGCAAAUGAAUUUUUU
..--...................................-----...---.....(-(((-..((((((...............))))))..))))........ (  -9.46)
>consensus
UUCCCGCCCGC_UUUUCCACCUC____CCUCAUCCCCAUUUCCCCCCGACAACCCCAACAGGGGUGCAUGAACAUUUUUUGCAAAUGCAGCAAAUGAAUUUUUU
...................................................(((((....))))).......(((((.((((....)))).)))))........ ( -7.79 =  -9.23 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:47 2006