Locus 3401

Sequence ID X_DroMel_CAF1
Location 9,103,230 – 9,103,344
Length 114
Max. P 0.670315
window5565

overview

Window 5

Location 9,103,230 – 9,103,344
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.26
Mean single sequence MFE -42.11
Consensus MFE -27.31
Energy contribution -27.57
Covariance contribution 0.26
Combinations/Pair 1.22
Mean z-score -1.76
Structure conservation index 0.65
SVM decision value 0.29
SVM RNA-class probability 0.670315
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9103230 114 - 22224390
GGAAGUUGUGCCAUAGCAGAUCCCGCAAUACA------UUUGUGGCUUAGGUUUUCCGCUUCUGGUCGAGCUGCUGCUGCGGCAGCUCCUCCUGCAGCUGAAGGAUGUGUUCCAGCGGCU
(((((.(.(((....))).)..((((((....------.)))))).......)))))((....((..(((((((((...)))))))))..)).))(((((..(((.....)))..))))) ( -42.40)
>DroPse_CAF1 10375 112 - 1
--------UGACAUCAUCGAUAUCAUUAUGCAGGCUAUGUUACUGCUUAGGUUUUGCGCUUCUGCUCAAGCUGCUGCUGCGGCAGUUCCUCCUGGAGCUGCAGAAUGUGCUCCAGCGGCU
--------((((((..((..(((....)))..))..))))))(((((..((....((((((((((....(((((....)))))((((((....)))))))))))).)))).))))))).. ( -40.20)
>DroSim_CAF1 8909 114 - 1
GGAAGUUGUGCCAUAGCAGAUCCCGCAAUACA------UUUGUGGCUUAGGUUUUCCGCUUCUGGUCGAGCUGCUGCUGCGGAAGCUCCUCCUGCAGCUGAAGGAUGUGUUCCAGCGGCU
.....(((.((((.(((.....((((((....------.))))))....((....)))))..)))))))((((((((((((((......))).)))))....(((.....))))))))). ( -40.40)
>DroEre_CAF1 9964 114 - 1
GGAAGUUGUGCCAUAGCAGAUCCCGCAAUACA------UUUCUGGCUUAGGUUUUCCGCUUUUGGUCGAGCUGCUGCUGCGGCAGCUCCUCCUGCAGCUGGAGGAUGUGUUCCAGGGGUU
........(((....)))((((((..((((((------((((..(((..((....))((....((..(((((((((...)))))))))..)).)))))..)).))))))))...)))))) ( -45.60)
>DroYak_CAF1 10371 114 - 1
GGAAGUUGUGCCAUAGCAGAUCCCGCAAUACA------UUUCUGGCUUAGGUUUUCCGCUUCUGGUCGAGCUGCUGCUGCGGCAGCUCCUCCUGCAGCUGGAGGAUGUGUUCCAGCGGCU
((((((.(.(((..((((((............------..))).)))..)))...).))))))((..(((((((((...)))))))))..)).((.(((((((......))))))).)). ( -44.14)
>DroPer_CAF1 11218 112 - 1
--------UGACAUCAUCGAUAUCAUUAUGCAGGCUAUGCUACUGCUUAGGUUUUGCGCUUCUGCUCAAGCUGCUGCUGCGGCAGUUCCUCCUGGAGCUGCAGAAUGUGUUCCAGCGGUU
--------(((.(((...))).)))....(((.....))).((((((..((....((((((((((....(((((....)))))((((((....)))))))))))).)))).)))))))). ( -39.90)
>consensus
GGAAGUUGUGCCAUAGCAGAUCCCGCAAUACA______UUUAUGGCUUAGGUUUUCCGCUUCUGGUCGAGCUGCUGCUGCGGCAGCUCCUCCUGCAGCUGAAGGAUGUGUUCCAGCGGCU
.........(((...((.......))................(((..((.((((((((((.(.((..(((((((((...)))))))))..)).).))).))))))).))..)))..))). (-27.31 = -27.57 +   0.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:27 2006