Locus 1270

Sequence ID 2R_DroMel_CAF1
Location 4,944,480 – 4,944,597
Length 117
Max. P 0.580025
window2204

overview

Window 4

Location 4,944,480 – 4,944,597
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.11
Mean single sequence MFE -37.48
Consensus MFE -25.25
Energy contribution -24.03
Covariance contribution -1.22
Combinations/Pair 1.45
Mean z-score -1.32
Structure conservation index 0.67
SVM decision value 0.09
SVM RNA-class probability 0.580025
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4944480 117 - 20766785
GUGUCAUUGUUGUCAUGGCCAUGGUGCUCUACAACAGCUCGCAUAGAGUUCUUGAAGAGCUCGAAAAGCAUGUAGUACAGGUGCGAGGGCACGUAAACGGUGCGGAUGGGCAGGUUG
(((.((....)).)))(.((((.(.(((((.(((.(((((.....))))).))).))))).).....((((...((..(.((((....)))).)..)).))))..)))).)...... ( -35.30)
>DroVir_CAF1 8513 117 - 1
GUAUCACAAUUGUCAUGAUUGUGAUGCUCGACAACGGCGCGCAUCGAGUUCUUGAACAGCUCAAAGAGCAUAUAGUACAAAUGCGACGGAACGUACACGGUCCGGAUGGGUGUACCC
(((((((((((.....))))))))))).........((((.(((((((((.......))))).....((((.........))))..((((.((....)).)))))))).)))).... ( -37.90)
>DroPse_CAF1 9790 117 - 1
GUGUCGCAGUUGUCAUUAUUGUGGUGCUCCACCACAGCUCUCAUGGAGUUCUUGAAGAGCUCAAAGAGCAUGUAAUACAAAUGCGAGGGCACGUAGACAGUGCGGAUGGGCAGGUUG
((.(((((.(((((.....(((((((...)))))))((((((...((((((.....)))))).....((((.........)))))))))).....))))))))))....))...... ( -43.10)
>DroGri_CAF1 8465 117 - 1
GUAUCACAGUUGUUACGAGUGUGAUGCUCAACAACGGCUCGCAUCGAGUUCUUAAAUAGCUCAAACAGCAUAUAGUACAAAUGCGACGGCACAUAAACGGUGUUUAUGGGCAACGGC
((((((((.(((...))).)))))))).......((..((((((.(((((.......))))).....((.....))....))))))..((.(((((((...))))))).))..)).. ( -30.30)
>DroMoj_CAF1 11240 117 - 1
GAGUCGCAGCUGUCCUGGUUGUGAUGCUCGACAACGGCGCGCAUCGAGUUCUUAAACAGCUCAAAGAGCAUAUAGUACAAAUGCGAAGGCACGUAGACAGUGCGUAUGGGUAUGCCC
...(((((..(((.(((..((((((((.((.......)).)))))(((((.......))))).....)))..))).)))..)))))..((((.......))))....(((....))) ( -35.20)
>DroPer_CAF1 10497 117 - 1
GUGUCGCAGUUGUCAUUAUUGUGGUGCUCCACCACAGCUCUCAUGGAGUUCUUGAAGAGCUCGAAGAGCAUGUAAUACAAAUGCGAGGGCACGUAGACAGUGCGGAUGGGCAGGUUG
((.(((((.(((((.....(((((((...)))))))((((((...((((((.....)))))).....((((.........)))))))))).....))))))))))....))...... ( -43.10)
>consensus
GUGUCACAGUUGUCAUGAUUGUGAUGCUCCACAACAGCUCGCAUCGAGUUCUUGAAGAGCUCAAAGAGCAUAUAGUACAAAUGCGAGGGCACGUAGACAGUGCGGAUGGGCAGGUUC
(((((((((((.....)))))))))))........(((((.....)))))........(((((....((((.........))))....((((.......))))...)))))...... (-25.25 = -24.03 +  -1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:37 2006