Locus 4428

Sequence ID 3L_DroMel_CAF1
Location 12,926,126 – 12,926,225
Length 99
Max. P 0.994905
window6865

overview

Window 5

Location 12,926,126 – 12,926,225
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.05
Mean single sequence MFE -35.14
Consensus MFE -26.26
Energy contribution -27.42
Covariance contribution 1.16
Combinations/Pair 1.12
Mean z-score -2.86
Structure conservation index 0.75
SVM decision value 2.52
SVM RNA-class probability 0.994905
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12926126 99 - 23771897
----------------UAAGCCAGUGAGCCAUGGCCAACGACGACGAUGAGCUGCAAUUUGUGAUGCCAGAAAGGUCAGCUUGUUGAGAAGUUGGUUAGGGUUUACCUGAA-----GGGA
----------------.....(((((((((.((((((((..(..(((..(((((...(((.((....)).)))...)))))..))).)..)))))))).)))))).)))..-----.... ( -36.60)
>DroSec_CAF1 46861 98 - 1
-----------------AAGCCAGUGAGCCAUGGCCAACGACGACGAUGAGCUGCAAUUUGCGAUGUCAGAAAGGUCAGCUUGUUGAGAAGUUGGUUUGGGUUUAACUGAA-----GGGA
-----------------....(((((((((..(((((((..(..(((..((((((..((((......))))...).)))))..))).)..)))))))..))))).))))..-----.... ( -32.90)
>DroEre_CAF1 52308 98 - 1
-----------------AAGUCAGUGAGCCAUGGCCAACAACGACGAUGAGCUGCAAUUUGCGAUGUCAGGAAGGUCAGCUUGCUGAGAAGUUGGUUAGGGUUUAACUGAA-----GGGA
-----------------...((((((((((.((((((((..(..((..((((((...(((.(.......).)))..))))))..)).)..)))))))).))))).))))).-----.... ( -32.10)
>DroYak_CAF1 49856 98 - 1
-----------------AAGUCAGUGAGCCAUGGCCAACAACGACGAUGAGCUGCAAUUUGUGAUGUCAGAGAGGUCAGCUUGCUGAGAAGUUGGUUAGGGUUUAACUGAC-----GGGA
-----------------..(((((((((((.((((((((..(..((..((((((...(((.((....)).)))...))))))..)).)..)))))))).))))).))))))-----.... ( -38.10)
>DroAna_CAF1 71790 120 - 1
GCUGCUACAGCAACUGCAAGUCAGUGAGCCAUGGCCAGAAGCGACGAUGAGCUGCAAUUUGCGAUGCCAGAAAGGUCAACAUGUUGAGAUGUUGCUUCGGGUCUGGUUGAACUAAAACUC
((((...))))...........(((.(((((.((((.(((((((((.((.(((((.....)))..))))......((((....))))..))))))))).)))))))))..)))....... ( -36.00)
>consensus
_________________AAGUCAGUGAGCCAUGGCCAACAACGACGAUGAGCUGCAAUUUGCGAUGUCAGAAAGGUCAGCUUGUUGAGAAGUUGGUUAGGGUUUAACUGAA_____GGGA
.....................(((((((((.((((((((..(..(((((((((((..((((......))))...).)))))))))).)..)))))))).)))))).)))........... (-26.26 = -27.42 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:23 2006