Locus 5240

Sequence ID 2R_DroMel_CAF1
Location 17,055,061 – 17,055,155
Length 94
Max. P 0.681702
window8371

overview

Window 1

Location 17,055,061 – 17,055,155
Length 94
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 81.92
Mean single sequence MFE -24.11
Consensus MFE -13.97
Energy contribution -14.17
Covariance contribution 0.20
Combinations/Pair 1.08
Mean z-score -2.35
Structure conservation index 0.58
SVM decision value 0.31
SVM RNA-class probability 0.681702
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17055061 94 + 20766785
------AAAAUAACCCCUAUGACGUCAGGGGUUAUAGCUUGGAAGAGGGCUUGAUUC-AUCCCACCAGUAACGC------CCAC-AAAAAGCACCAACCACCAAACCA
------...(((((((((........))))))))).((((....(.((((.......-..............))------)).)-...))))................ ( -22.40)
>DroSec_CAF1 149527 94 + 1
------AAAAUAACCCCUAUGACGUCAGGGGUUAUAGCUUGGAAGAGGGCUUGAUUC-AUCCCACCAGUAACGC------CCAC-AAAAAGCACCACCCACCAAGCAA
------...(((((((((........))))))))).((((((..(.((((((.....-................------....-...)))).)).)...)))))).. ( -26.69)
>DroSim_CAF1 158050 94 + 1
------AAAAUAACCCCUAUGACGUCAGGGGUUAUAGCUUGGAAGAGGGCUUGAUUC-AUCCCACCAGUAACGC------CCAC-AAAAAGCACCACCCACCAAACCA
------...(((((((((........))))))))).((((....(.((((.......-..............))------)).)-...))))................ ( -22.40)
>DroEre_CAF1 153567 90 + 1
------AAAAUAACCCCUAUGACGUCAGGGGCUAUAGCUUGGAAGAGGGCCUGAUUC-AUCCCA-CAGUACCGC------CC---ACAAAGCCCAACCAACCA-CCCA
------...(((.(((((........))))).))).((((....(.(((((((....-......-)))....))------))---.).))))...........-.... ( -17.80)
>DroYak_CAF1 163375 94 + 1
-----AAAAAUAACCCCUAUGACGUCAGGGGUUAUAGCUUGGAAGAGGGCCUGAUUC-AUCCCA-CAGUACCGC------CCACCACAAAGCACAAACCACCC-ACCA
-----....(((((((((........))))))))).((((....(.(((((((....-......-)))....))------)).)....))))...........-.... ( -23.90)
>DroAna_CAF1 164503 104 + 1
GAGCCAAAGAUAAC-CCUAUGACGUCAGGGGUUAUAGCUCGGAGCAGGGCUUGAUUGGAGACCCCCAGAAA-GCUUGGCUUUAC-CAACAGAAGCACCCACCAAAUC-
((((.....(((((-(((.((....)))))))))).))))(((((..(((((..((((......)))).))-)))..)))))..-......................- ( -31.50)
>consensus
______AAAAUAACCCCUAUGACGUCAGGGGUUAUAGCUUGGAAGAGGGCUUGAUUC_AUCCCACCAGUAACGC______CCAC_AAAAAGCACCACCCACCAAACCA
.........(((((((((........))))))))).((((......)))).......................................................... (-13.97 = -14.17 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:56 2006