Locus 3616

Sequence ID 2R_DroMel_CAF1
Location 11,998,992 – 11,999,094
Length 102
Max. P 0.822518
window5888

overview

Window 8

Location 11,998,992 – 11,999,094
Length 102
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 79.28
Mean single sequence MFE -26.10
Consensus MFE -14.97
Energy contribution -15.63
Covariance contribution 0.67
Combinations/Pair 1.17
Mean z-score -2.09
Structure conservation index 0.57
SVM decision value 0.69
SVM RNA-class probability 0.822518
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11998992 102 + 20766785
--GCUUAUAUGGCCGCAUUUUGUGGCAAAUAAACUUGCAACUG-CCAGCCAUAAAAACUAUGUCGAUGUCGACAAAUUAUGCACCAAGC-------ACGACAGCAUAA-AGU--C-
--((((.((((((.(((....((.((((......)))).))))-)..)))))).......(((((....)))))...........))))-------..(((.......-.))--)- ( -24.60)
>DroVir_CAF1 54383 91 + 1
GCGCUUAUAUGAUCGCAUUUUGUGGCAAGUCAGCAUGC------------AUAAAAACUGUGUCGAUGUUGGCAAAUUGUGCGUU--G----------CACAGCAUAA-AAUAUCG
(((.((....)).)))((((((((....((((((((((------------(((.....)))))..))))))))...((((((...--)----------))))))))))-))).... ( -25.70)
>DroSim_CAF1 53667 102 + 1
--GCUUAUAUGGCCGCAUUUUGUGGCAAAUAAACUUGCAACUG-CCAGCCAUAAAAACUAUGUCGAUGUCGACAAAUUAUGCAGCAAGC-------ACGACAGCAUAA-AGU--C-
--((((.((((((.(((....((.((((......)))).))))-)..)))))).......(((((....)))))...........))))-------..(((.......-.))--)- ( -24.60)
>DroYak_CAF1 52078 102 + 1
--GCUUAUAUGGCCGCAUUUUGUGGCAAAUAAACUUGCAACUG-CCAGCCAUAAAAACUAUGUCGAUGUCGACAAAUUAUGCACCAUGC-------ACGACAGCAUAA-AGU--C-
--((...((((((.(((....((.((((......)))).))))-)..)))))).......(((((....)))))......))...((((-------......))))..-...--.- ( -24.70)
>DroAna_CAF1 52934 109 + 1
--GCUUAUAUGGCCGCAUUUUGUGGCAAAUAAACUUGCAACUG-CCAACCAUAAAAACUAUGUCGAUGUCGACAAAUUAUGCACUGAGCUUGUCUCUCGACAGAAUAA-AAU--C-
--((((((((((((((.....)))))..........((....)-)....)))).......(((((....)))))..........)))))(((((....))))).....-...--.- ( -25.30)
>DroMoj_CAF1 63353 102 + 1
--GCUAAUAUGAUCGCAUUUUGUGGCAAGUCAGCUUGCAACUGGCAAGCCAUAAAAACUGUGUCGAUGCUAACAAAUUGUGCGUG--G----------CACAGCAUAAAAAUGUCG
--.....((((......(((((((((..(((((.......)))))..))))))))).(((((((.((((...........)))))--)----------)))))))))......... ( -31.70)
>consensus
__GCUUAUAUGGCCGCAUUUUGUGGCAAAUAAACUUGCAACUG_CCAGCCAUAAAAACUAUGUCGAUGUCGACAAAUUAUGCACCAAGC_______ACGACAGCAUAA_AAU__C_
.......(((((((((.....)))((((......)))).........)))))).......(((((....)))))..((((((....................))))))........ (-14.97 = -15.63 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:58 2006