Locus 1550

Sequence ID 2R_DroMel_CAF1
Location 5,877,983 – 5,878,077
Length 94
Max. P 0.798861
window2606

overview

Window 6

Location 5,877,983 – 5,878,077
Length 94
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 79.46
Mean single sequence MFE -29.62
Consensus MFE -13.81
Energy contribution -13.45
Covariance contribution -0.36
Combinations/Pair 1.20
Mean z-score -2.54
Structure conservation index 0.47
SVM decision value 0.61
SVM RNA-class probability 0.798861
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5877983 94 + 20766785
---AACCCCUUGCGAGC--CAAGGAACUUUCCCCAUCAGCUCUGAGCGAACAAGUUUAUCUCGGGGCUUCUGCUCCUGGCU------G-----AUGUGGCUACGAUUUUU
---.........(((((--((.(((....))).((((((((.(((((......)))))....(((((....))))).))))------)-----)))))))).))...... ( -32.50)
>DroSec_CAF1 14072 84 + 1
-------------GAGC--CAAGGAACUUUCCCCAUCAGCUCUGAGCGAACAAGUUUAUCUCGGGGCUUCUGCUCCUGGCU------G-----AUGUGGCUACGAUUUUU
-------------.(((--((.(((....))).((((((((.(((((......)))))....(((((....))))).))))------)-----))))))))......... ( -30.80)
>DroSim_CAF1 12331 84 + 1
-------------GAGC--CAAGGAACUUUCCCCAUCAGCUCUGAGCGAACAAGUUUAUCUCGGGGCUUCUGCUCCUGGCU------G-----AUGUGGCUACGAUUUUU
-------------.(((--((.(((....))).((((((((.(((((......)))))....(((((....))))).))))------)-----))))))))......... ( -30.80)
>DroEre_CAF1 13896 99 + 1
AAAAACCCCUUCGAAGCCCCAAGGAACUUUGCCCAUCAGCUCUGAGCGAACAAUUUUAUCUCGGGGCUUCUGCUCCUGGCU------A-----AUGUGACUACGAUUUUU
..........((((((((((.(((((..(((..(.(((....)))..)..)))..)).))).)))))))).((.....)).------.-----..........))..... ( -21.40)
>DroYak_CAF1 13421 97 + 1
AAAAGCCCCUUGCCAGC--CAAGGAACUUUCCCCAUCAGCUCUGAACGAACAAGUUUAUCUCGGGGCUUCUGCUCCUGGCU------G-----AUGUGGCUACGAUUUUU
...(((((((((.....--))))).........((((((((.(((((......)))))....(((((....))))).))))------)-----))).))))......... ( -32.40)
>DroAna_CAF1 20266 99 + 1
---AACC------AUGC--CAAGGAACUUUUCAAAUCAGCCCUGAGCGUAUAAGUUUAUCUUGGGGCUUUGGCUCUUCGCAUCAGCUAGAGCCAGCUAUCUACGAUUUUU
---..((------....--...))........((((((((((..((.(((......)))))..)))))((((((((..((....)).))))))))........))))).. ( -29.80)
>consensus
___AACC______GAGC__CAAGGAACUUUCCCCAUCAGCUCUGAGCGAACAAGUUUAUCUCGGGGCUUCUGCUCCUGGCU______G_____AUGUGGCUACGAUUUUU
..............(((....((((.(..........(((((((((.(((....)))..)))))))))...).)))).)))............................. (-13.81 = -13.45 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:19 2006