Locus 10183

Sequence ID 3R_DroMel_CAF1
Location 27,315,283 – 27,315,400
Length 117
Max. P 0.931718
window16214

overview

Window 4

Location 27,315,283 – 27,315,400
Length 117
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 74.97
Mean single sequence MFE -24.19
Consensus MFE -13.54
Energy contribution -14.99
Covariance contribution 1.45
Combinations/Pair 1.20
Mean z-score -1.98
Structure conservation index 0.56
SVM decision value 1.22
SVM RNA-class probability 0.931718
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27315283 117 - 27905053
AAGACGCACUGCCUCUUCCUCGUUCAACA--AUCUUUUUGGCAGUGUCAUGCAAUCCGUUUAAACUAGUUGCUCGAUCCCUUAUCGAUCAUAGCUACCUGCUAGUAUCGCGUCGCCACA
..(((((((((((................--........))))))(((..(((((..((....))..)))))..)))........(((..((((.....))))..))))))))...... ( -29.86)
>DroPse_CAF1 5197 112 - 1
AAGACGCACCAUCAUACCAUCAUACCAUCAUACC-UUC-----C-UCCUUCCAAUCCUUGUCAACUAAUUGCUCGAUCUCUUAUCGACUAUGGCUACCUGCUGAUUUCAUGUUUGGAGA
..................................-...-----.-...((((((.....(((..........(((((.....)))))....(((.....)))))).......)))))). ( -12.00)
>DroSim_CAF1 20668 116 - 1
AAGACGCACUGCCUCUUCCUCGUUCAC-C--AUCUUUUUGGCAGUGUCAUGCAAUCCGUUUAAACUAGUUUCUCGAUCCCUUAUCGAGCAUAGCUACCUGCUAGUAUCGCGUCGCCAGA
..(((((((((((..............-.--........))))))...((((...................((((((.....))))))..((((.....)))))))).)))))...... ( -28.80)
>DroEre_CAF1 20526 115 - 1
AGGACGCACUGCCUCUUCCUCGUUCUC-U--ACC-UUUUGGCAGUGCCAUGCAAUCCUUUUCAACUCAUUGAUCGAUCUCUUAUCGAGCAUAGCAACCUGCUAAUAUCACGUCGCCAGC
..(((((((((((..............-.--...-....))))))))..(((........((((....))))(((((.....))))))))((((.....)))).......)))...... ( -27.95)
>DroYak_CAF1 16624 115 - 1
AAGACGCACUGCCUCUUCCUCGUUCUC-G--ACC-UCUUGGCAGUGCCAUGCAAUCCUUUUCAACUAAUUGCUCGAUCUCUUAUCGAGCAUAGCAACCUGCUAAUAUCACGUCCCCAGC
..(((((((((((......(((....)-)--)..-....))))))))......................((((((((.....))))))))((((.....)))).......)))...... ( -34.50)
>DroPer_CAF1 5194 112 - 1
AAGACGCACCAUCAUACCAUCAUACCAUCAUACC-UUC-----C-UCCUUCCAAUCCUUGUCAACUAAUUGCUCGAUCUCUUAUCGACUAUGGCUACCUGCUGAUUUCAUGUUUGGAGA
..................................-...-----.-...((((((.....(((..........(((((.....)))))....(((.....)))))).......)))))). ( -12.00)
>consensus
AAGACGCACUGCCUCUUCCUCGUUCAA_C__ACC_UUUUGGCAGUGCCAUGCAAUCCUUUUCAACUAAUUGCUCGAUCUCUUAUCGAGCAUAGCUACCUGCUAAUAUCACGUCGCCAGA
..(((((((((((..........................)))))))).........................(((((.....)))))...((((.....)))).......)))...... (-13.54 = -14.99 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:50:51 2006