Locus 3864

Sequence ID 3R_DroMel_CAF1
Location 10,516,597 – 10,516,689
Length 92
Max. P 0.990909
window6188

overview

Window 8

Location 10,516,597 – 10,516,689
Length 92
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 79.57
Mean single sequence MFE -17.75
Consensus MFE -4.42
Energy contribution -5.38
Covariance contribution 0.96
Combinations/Pair 1.21
Mean z-score -3.20
Structure conservation index 0.25
SVM decision value 2.24
SVM RNA-class probability 0.990909
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10516597 92 + 27905053
U-AAGAAAAGUAAGAAGUUU---UAAGUGUAU-------UUAUGGCUUAAGAUAAACACUUCUCUACCAAUAGUUUUAUCCCAUAAACUCACUUCUAACACCU
.-..............(((.---.(((((..(-------((((((.....((((((.(((...........))))))))))))))))..)))))..))).... ( -17.60)
>DroSec_CAF1 166734 88 + 1
----AAAAAGUAAGACGUUU---UAAGUGUAU-------UUAUGGUUUAAGAUAAACACUUCUCCACCAAUAGUU-UAUCCCAUAAACUCACUUCUAACACCU
----............(((.---.(((((..(-------((((((.....(((((((...............)))-)))))))))))..)))))..))).... ( -18.86)
>DroSim_CAF1 63036 89 + 1
----AAAAAGUAAGAAGUUU---UAAGUGUAU-------UUAUGGUUUAAGAUAAACACUUCUCUACCAAUAGUUUUAUCCUAUAAACUCACUUCUAACACCU
----............(((.---.(((((..(-------((((((..((((((...................))))))..)))))))..)))))..))).... ( -16.11)
>DroEre_CAF1 63601 100 + 1
---UGAUAUGUAAUAAAUUGCUGAAAAUAUAUUAGAACUUUAUGCUUUGGGAUAAACACUUCUCCACCAAUGUUUUUAUCACAUAAACUCAGUUCUAACACCU
---......((((....))))..........((((((((........((.((((((.((............)).)))))).)).......))))))))..... ( -12.46)
>DroYak_CAF1 63712 97 + 1
CAAAGAAAAGUUAGAACUUU---UAAGUAUAU---ACAUAUAUGAGUUGAGAUAAACACUUCUCAACGAAUGUUUUUAUCACAUAAACUCAGUUCUAACACCU
.........(((((((((((---((.(((((.---....((((..(((((((........)))))))..))))...))).)).))))...))))))))).... ( -23.70)
>consensus
____GAAAAGUAAGAAGUUU___UAAGUGUAU_______UUAUGGUUUAAGAUAAACACUUCUCCACCAAUAGUUUUAUCCCAUAAACUCACUUCUAACACCU
.........((.((((((........................((((...(((........)))..))))((((.......))))......)))))).)).... ( -4.42 =  -5.38 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:55 2006