Locus 3358

Sequence ID X_DroMel_CAF1
Location 8,974,010 – 8,974,137
Length 127
Max. P 0.950384
window5496 window5497

overview

Window 6

Location 8,974,010 – 8,974,107
Length 97
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 80.45
Mean single sequence MFE -19.69
Consensus MFE -12.85
Energy contribution -12.63
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.98
Structure conservation index 0.65
SVM decision value 0.57
SVM RNA-class probability 0.784810
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8974010 97 + 22224390
ACUGCCA------CACCGAUGCUAUCCAGCA-------CAUCCAGCUCACUAAGCCCUUAAAUGCAUCCGUACUUUUGUGCAAAUGUAUAGCACGGCAACUACUUGCAGC
.((((..------..(((.((((((.(((((-------......(((.....))).......)))....((((....))))...)).))))))))).........)))). ( -21.94)
>DroEre_CAF1 19417 105 + 1
ACUGCCACCUCCACUCCGAUGCUAUCCAGCUAUCCAGCUAUCCAGCUCACUAAGCCCUUAAAUGCAUCCGUACU-UUGUGCAAAUGU--AGCACAGCAACUACUUGCA--
.................(((((.....((((....)))).....(((.....)))........)))))......-.(((((......--.)))))((((....)))).-- ( -19.40)
>DroYak_CAF1 20113 85 + 1
A------------CUCCGAUGCUAUCCAGG--------CAUCCAGUUCACUAAGCCCUUAAAUGCAUCCGUACU-UUGUGCAAAUGU--AGCACAGCAACUACUUGCA--
.------------....(((((......((--------(....((....))..))).......)))))......-.(((((......--.)))))((((....)))).-- ( -17.72)
>consensus
ACUGCCA______CUCCGAUGCUAUCCAGC________CAUCCAGCUCACUAAGCCCUUAAAUGCAUCCGUACU_UUGUGCAAAUGU__AGCACAGCAACUACUUGCA__
.................(.((((.....................(((.....)))........((((..((((....))))..))))..))))).((((....))))... (-12.85 = -12.63 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,974,037 – 8,974,137
Length 100
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 93.90
Mean single sequence MFE -24.67
Consensus MFE -22.57
Energy contribution -22.13
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -2.62
Structure conservation index 0.92
SVM decision value 1.40
SVM RNA-class probability 0.950384
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8974037 100 + 22224390
UCCAGCUCACUAAGCCCUUAAAUGCAUCCGUACUUUUGUGCAAAUGUAUAGCACGGCAACUACUUGCAGCUCUGGAUCGAUCAUCCAUCAUUCUGGGCAA
.............((((....((((((..((((....))))..))))))(((...((((....)))).))).(((((.....))))).......)))).. ( -24.90)
>DroEre_CAF1 19457 95 + 1
UCCAGCUCACUAAGCCCUUAAAUGCAUCCGUACU-UUGUGCAAAUGU--AGCACAGCAACUACUUGCA--UCUGGAUCGAUCAUCCAUCAUCCAGGGCAA
.............((((....(((((...(((..-((((((......--.))))))....))).))))--).(((((.(((.....)))))))))))).. ( -25.30)
>DroYak_CAF1 20133 95 + 1
UCCAGUUCACUAAGCCCUUAAAUGCAUCCGUACU-UUGUGCAAAUGU--AGCACAGCAACUACUUGCA--UCUGGAUCGAUCAUCCAUCAUCCUGGGCAA
.............((((....(((((...(((..-((((((......--.))))))....))).))))--)..((((.(((.....))))))).)))).. ( -23.80)
>consensus
UCCAGCUCACUAAGCCCUUAAAUGCAUCCGUACU_UUGUGCAAAUGU__AGCACAGCAACUACUUGCA__UCUGGAUCGAUCAUCCAUCAUCCUGGGCAA
.............((((.....((((...(((...((((((.........))))))....))).)))).....((((.(((.....))))))).)))).. (-22.57 = -22.13 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:20 2006