Locus 5493

Sequence ID 3R_DroMel_CAF1
Location 14,464,996 – 14,465,153
Length 157
Max. P 0.781780
window8964 window8965

overview

Window 4

Location 14,464,996 – 14,465,113
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.56
Mean single sequence MFE -40.27
Consensus MFE -32.87
Energy contribution -35.20
Covariance contribution 2.33
Combinations/Pair 1.00
Mean z-score -2.39
Structure conservation index 0.82
SVM decision value 0.33
SVM RNA-class probability 0.690081
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14464996 117 + 27905053
CUUCAAAACCAUGCAAAUGUCAGAUGCCAUCUAUG-GUAGAACUUUCCUGUCUGGGCGAAUGUCGAUUGCCGUGAGUCGU--CUGGCCAGAAUUUGGAAAGUAUUCCCAGGCGGCAUCAA
......................((((((..((..(-(.((.(((((((..(((((.((...(.(((((......))))).--))).)))))....))))))).)).))))..)))))).. ( -37.10)
>DroSim_CAF1 22887 120 + 1
CUUCAAAACCAUGCAAAUGUCAGAUGCCAUCUAUGGGUAGAACUUUCCUGUCUGGGCGAAUGUCGAUUGCCGUGCGGCGUCUCUGGCCAGAAUUAGGAAAGUAUUCCCAUGCGGCAUCAU
......................((((((...((((((.((.((((((((((((((.(((((((((.........)))))).)).).)))))..))))))))).)))))))).)))))).. ( -44.40)
>DroYak_CAF1 24684 116 + 1
CUUCAAAACCAUGUAAAUGUCAGAUGCCAUCUAUA-GUAGAACUUUCCUGUCUGGGCGAAUGGCGAUUGCCGUGAGGCGU--CUGGCCAGAAUUUGGAAAGUAUUCCCAGGCGGCAUCA-
......................((((((.((((..-.))))(((((((..(((((((.....))(((.(((....)))))--)...)))))....)))))))..........)))))).- ( -39.30)
>consensus
CUUCAAAACCAUGCAAAUGUCAGAUGCCAUCUAUG_GUAGAACUUUCCUGUCUGGGCGAAUGUCGAUUGCCGUGAGGCGU__CUGGCCAGAAUUUGGAAAGUAUUCCCAGGCGGCAUCA_
......................((((((.((((....))))(((((((..(((((.((.....)....(((....)))......).)))))....)))))))..........)))))).. (-32.87 = -35.20 +   2.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,465,035 – 14,465,153
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 83.62
Mean single sequence MFE -41.03
Consensus MFE -29.31
Energy contribution -31.64
Covariance contribution 2.33
Combinations/Pair 1.00
Mean z-score -2.14
Structure conservation index 0.71
SVM decision value 0.56
SVM RNA-class probability 0.781780
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14465035 118 + 27905053
AACUUUCCUGUCUGGGCGAAUGUCGAUUGCCGUGAGUCGU--CUGGCCAGAAUUUGGAAAGUAUUCCCAGGCGGCAUCAACAUCUCUAUGUGGCAUCAUUUGCUGUUGCCGCAACAUGCC
.(((((((..(((((.((...(.(((((......))))).--))).)))))....)))))))........((((((.(.((((....))))((((.....))))).))))))........ ( -39.10)
>DroSim_CAF1 22927 112 + 1
AACUUUCCUGUCUGGGCGAAUGUCGAUUGCCGUGCGGCGUCUCUGGCCAGAAUUAGGAAAGUAUUCCCAUGCGGCAUCAUCAUCUCUG--------CUGUUGCAGUUGCCGCAACAUGCC
.((((((((((((((.(((((((((.........)))))).)).).)))))..))))))))).......(((((((.........(((--------(....)))).)))))))....... ( -42.30)
>DroYak_CAF1 24723 110 + 1
AACUUUCCUGUCUGGGCGAAUGGCGAUUGCCGUGAGGCGU--CUGGCCAGAAUUUGGAAAGUAUUCCCAGGCGGCAUCA---UCUUGAAGUG----CAUUUGCAGCUGCCGCAACUUAC-
.(((((((..(((((((.....))(((.(((....)))))--)...)))))....))))))).......((((((.((.---....))..((----(....))))))))).........- ( -41.70)
>consensus
AACUUUCCUGUCUGGGCGAAUGUCGAUUGCCGUGAGGCGU__CUGGCCAGAAUUUGGAAAGUAUUCCCAGGCGGCAUCA_CAUCUCUA_GUG____CAUUUGCAGUUGCCGCAACAUGCC
.(((((((..(((((.((.....)....(((....)))......).)))))....)))))))........((((((..............................))))))........ (-29.31 = -31.64 +   2.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:31 2006