Locus 5358

Sequence ID 3R_DroMel_CAF1
Location 14,065,678 – 14,065,798
Length 120
Max. P 0.616716
window8734

overview

Window 4

Location 14,065,678 – 14,065,798
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.39
Mean single sequence MFE -40.05
Consensus MFE -22.39
Energy contribution -22.53
Covariance contribution 0.14
Combinations/Pair 1.35
Mean z-score -1.83
Structure conservation index 0.56
SVM decision value 0.17
SVM RNA-class probability 0.616716
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14065678 120 + 27905053
CCUGCAAUUGGUCGUAGUCCAAACGUAGCUCCGGAGAAAGCUGCAGCAGUUGCUCCAGCAGAUCCUUGGCAUGAUCGGAAAUCUCCAACGACUCACUAGGAUACUGAACACAACCAUAGA
((((.....((((((........(((.(((..(((....((((.(((....))).))))...)))..))))))...(((....))).))))))...)))).................... ( -30.60)
>DroVir_CAF1 14300 120 + 1
CCUGCAGCUGCUCGUAGUCCAAGCGCAGCUCCGGGGACAGUUGAAGCAGUUGCUCCAGCAAAUCCCGAGCAUUGUCCGAAAUGUCCAACGCAUCCGAAGGAUAUUGCACACAGCCAUAAA
..(((((((((.(.........).)))))).(((((...((((.(((....))).))))...))))).)))((((....(((((((..((....))..)))))))....))))....... ( -36.50)
>DroPse_CAF1 11384 120 + 1
CCUGCAGCUGCUCAUAGUCCAGACGCAGCUCCGGAUUAAGCUGCAGCAGCUGCUCCAACAAGUCACGGGCAUGAUCAGAGAUGUCCAGAGAUUCGCUGGGGUACUGCACACAACCAUAGA
..(((((((.....((((((.((......)).)))))))))))))((((.(((((((.(.((((.(((((((........)))))).).)))).).)))))))))))............. ( -42.80)
>DroGri_CAF1 17444 120 + 1
CCUGCAGCUGUUCGUAGUCCAGGCGCAGAUCCGGAGUCAGUUGUAGCAGUUGCUCCAGUAAGCUGCGUGCAUUAUCCGAAAUGUCCAAGGCAUCUGACGGAUACAGCACGCAGCCGUAGA
...(((((((((((.(.(((.((.......))))).)....)).)))))))))........(((((((((..((((((..((((.....))))....))))))..)))))))))...... ( -44.10)
>DroEre_CAF1 13537 120 + 1
CCUGCAAUUGAUCGUAAUCCAAACGUAGCUCCGGAGAAAGCUGCAGCAGUUGCUCCAGCAGGUCCUUGGCAUGAUCUGAAAUGUCCAAGGACUCACUGGGAUACUGGACACAACCAUAGA
...(((((((...((.......))((((((........))))))..)))))))(((((..((((((((((((........))).)))))))))..)))))....(((......))).... ( -41.20)
>DroPer_CAF1 11348 120 + 1
CCUGCAGCUGCUCAUAGUCCAGACGCAGCUCCGGACUAAGCUGCAGCAGCUGCUCCAACAAGUCACGGGCAUGAUCAGAGAUGUCCAGAGAUUCGCUGGGGUACUGCACACAACCAUAGA
..(((((((.....((((((.((......)).)))))))))))))((((.(((((((.(.((((.(((((((........)))))).).)))).).)))))))))))............. ( -45.10)
>consensus
CCUGCAGCUGCUCGUAGUCCAAACGCAGCUCCGGAGAAAGCUGCAGCAGUUGCUCCAGCAAGUCCCGGGCAUGAUCAGAAAUGUCCAAAGAAUCACUGGGAUACUGCACACAACCAUAGA
((((((((((((....((....))((((((........))))))))))))))).............((((((........))))))...........))).................... (-22.39 = -22.53 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:50 2006