Locus 2031

Sequence ID 3R_DroMel_CAF1
Location 5,756,383 – 5,756,488
Length 105
Max. P 0.633972
window3332

overview

Window 2

Location 5,756,383 – 5,756,488
Length 105
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 86.57
Mean single sequence MFE -28.05
Consensus MFE -20.64
Energy contribution -22.24
Covariance contribution 1.60
Combinations/Pair 1.15
Mean z-score -1.71
Structure conservation index 0.74
SVM decision value 0.21
SVM RNA-class probability 0.633972
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5756383 105 + 27905053
UGGCGAAACCUCUUGGUUUAAGCUUAAGGUAAACACUCAGAAUAUCUGUUUACC-U--GAGUAAGA-ACGGCCAAUCAUUUUGCCGGUCCUACCCGGUUUUUAAUCGCA
((((.(((((....)))))..(((((.((((((((...........))))))))-)--))))....-...))))........(((((......)))))........... ( -29.60)
>DroSec_CAF1 48716 106 + 1
UGGCGAAACCUCUUGGUUUUAGCUUAAGGGAAACACUCAGAAUAUCUGUUUACC-U--GAGCAAGAGACGACCAAUCAUUUUGCCGGUCCUACCCGGUUUUUAAUCGCA
..((((...((((((.............(....).(((((.............)-)--)))))))))...............(((((......)))))......)))). ( -26.52)
>DroSim_CAF1 48634 107 + 1
UGGCGAAACCUCUUGGUUUUAGCUUAAGGUAAACACUCAGAAUAUCUGUUUAGCAA--GAGCAAGAGACGGCCAAUCAUUUUGCCGGUCCUACCCGGUUUUUAAUCGCA
..((((...((((((.((((.(((..(((((..(.....)..)))))....)))))--)).))))))...............(((((......)))))......)))). ( -28.90)
>DroEre_CAF1 43822 106 + 1
UGGCGUUACCUCUUGGUUUUAGCCCAUAGUAAACAACCAGAAUGUCUGUUUACC-U--AGGCAAGAAACCGCCGCUUAUUUUGCCGGUCCUACCCGGUUUUUAAUAGCA
.((((..(((....)))....(((....(((((((..(.....)..))))))).-.--.))).......))))(((......(((((......))))).......))). ( -31.12)
>DroYak_CAF1 32477 108 + 1
UGUCAAAACCUCUUGGUUUCAGCUCAAAGUAAACACCCAGAAUAUCUGUUUACC-UAUAGGCAAGAAGCCGCCGUUCAGUUUGCCGGUCCUACCCGGUUUUUAAUCGCA
.((..(((((....)))))..)).....(((((((...........))))))).-....(((.....)))((.(((.((...(((((......))))).)).))).)). ( -24.10)
>consensus
UGGCGAAACCUCUUGGUUUUAGCUUAAGGUAAACACUCAGAAUAUCUGUUUACC_U__GAGCAAGAAACGGCCAAUCAUUUUGCCGGUCCUACCCGGUUUUUAAUCGCA
((((((((((....)))))).((((..((((((((...........))))))))....))))........))))........(((((......)))))........... (-20.64 = -22.24 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:44 2006