Locus 671

Sequence ID X_DroMel_CAF1
Location 1,868,982 – 1,869,088
Length 106
Max. P 0.654139
window1081 window1082

overview

Window 1

Location 1,868,982 – 1,869,088
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.55
Mean single sequence MFE -37.54
Consensus MFE -25.23
Energy contribution -26.19
Covariance contribution 0.96
Combinations/Pair 1.14
Mean z-score -2.06
Structure conservation index 0.67
SVM decision value 0.25
SVM RNA-class probability 0.654139
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1868982 106 + 22224390
UGCUGCAACUCUGCGGAA--------ACUCUCCACGAAUUCC-CCCCUUGCCUAGCG--CACGAAGA-GGAUGGCAGCUCUGCCAAUUCUUUGGUAACUUUUCCGCCUAGUGAAAACU--
.......(((..((((((--------(...............-.....(((.....)--))((((((-(..(((((....))))).)))))))......)))))))..))).......-- ( -27.40)
>DroSec_CAF1 6291 112 + 1
UGCUGCAGCUCUGCGGAAGAGAG--GAGUUUCCACGAAUUCC-CCCCUUGCCUAGCG--CACGAAGG-GGAUGGCAACUCUGCCAAUUCUUUGGCAACUUUUCCGCCUAGUGAAAACU--
.......(((..(((((((((.(--(((((.(((.....(((-((.(.(((.....)--)).)..))-)))))).))))))(((((....)))))..)))))))))..))).......-- ( -42.80)
>DroSim_CAF1 1533 112 + 1
UGCUGCAGCUCUGCGGAAGAGAG--GAGUUUCCACGAAUUCC-CCCCUUGCCUAGCG--CACGAAGG-GGAUGGCAACUCUGCCAAUUCUUUGGCAACUUUUCCGCCUAGUGAAAACU--
.......(((..(((((((((.(--(((((.(((.....(((-((.(.(((.....)--)).)..))-)))))).))))))(((((....)))))..)))))))))..))).......-- ( -42.80)
>DroEre_CAF1 4962 116 + 1
UGCUGCAACUCUGCGGAAGAGAGUAGAGUUUCCACGGAUUU--CCCUUUGCCUUGCG--CCCGAAGUGUGAUGGCAACUCUUCCAAUUCUUUGGCAACUUUUCCGCCUAGUGAAAACUGU
............(((((((((...((((((.....((....--))....((((..((--(.....)))..).))))))))).((((....))))...))))))))).((((....)))). ( -34.90)
>DroYak_CAF1 6914 120 + 1
UGUUGCAACUCUGCGGAAGAGAGUAGAGUUUCCACGGAUUUUCCCCUUUGGCUUGCGCGCACGUAGGAUGAUGGCAACUCUGCCAAUUCUUUGGCAAUUUUUCCGCCUAGUGAAAACUGU
.(((...(((..(((((((((...((((((.(((.((.....)).......((((((....))))))....))).))))))(((((....)))))..)))))))))..)))...)))... ( -39.80)
>consensus
UGCUGCAACUCUGCGGAAGAGAG__GAGUUUCCACGAAUUCC_CCCCUUGCCUAGCG__CACGAAGG_GGAUGGCAACUCUGCCAAUUCUUUGGCAACUUUUCCGCCUAGUGAAAACU__
.......(((..(((((((((....(((((.(((..............(((...)))..............))).)))))((((((....)))))).)))))))))..)))......... (-25.23 = -26.19 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,868,982 – 1,869,088
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.55
Mean single sequence MFE -39.46
Consensus MFE -25.05
Energy contribution -26.64
Covariance contribution 1.59
Combinations/Pair 1.12
Mean z-score -2.22
Structure conservation index 0.63
SVM decision value 0.11
SVM RNA-class probability 0.587561
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1868982 106 - 22224390
--AGUUUUCACUAGGCGGAAAAGUUACCAAAGAAUUGGCAGAGCUGCCAUCC-UCUUCGUG--CGCUAGGCAAGGGG-GGAAUUCGUGGAGAGU--------UUCCGCAGAGUUGCAGCA
--.(((.(.(((..(((((((..((.(((..(((((((((....)))))(((-((((..((--(.....))).))))-))))))).)))))..)--------))))))..))).).))). ( -38.40)
>DroSec_CAF1 6291 112 - 1
--AGUUUUCACUAGGCGGAAAAGUUGCCAAAGAAUUGGCAGAGUUGCCAUCC-CCUUCGUG--CGCUAGGCAAGGGG-GGAAUUCGUGGAAACUC--CUCUCUUCCGCAGAGCUGCAGCA
--.(((..((((..((((((.((.((((((....))))))(((((.((((((-((((..((--(.....))).))))-))).....))).)))))--..)).))))))..)).)).))). ( -41.70)
>DroSim_CAF1 1533 112 - 1
--AGUUUUCACUAGGCGGAAAAGUUGCCAAAGAAUUGGCAGAGUUGCCAUCC-CCUUCGUG--CGCUAGGCAAGGGG-GGAAUUCGUGGAAACUC--CUCUCUUCCGCAGAGCUGCAGCA
--.(((..((((..((((((.((.((((((....))))))(((((.((((((-((((..((--(.....))).))))-))).....))).)))))--..)).))))))..)).)).))). ( -41.70)
>DroEre_CAF1 4962 116 - 1
ACAGUUUUCACUAGGCGGAAAAGUUGCCAAAGAAUUGGAAGAGUUGCCAUCACACUUCGGG--CGCAAGGCAAAGGG--AAAUCCGUGGAAACUCUACUCUCUUCCGCAGAGUUGCAGCA
...(((.(.(((..((((((.((...((((....)))).((((((.((((....(((..(.--(....).).)))((--....)))))).))))))...)).))))))..))).).))). ( -33.90)
>DroYak_CAF1 6914 120 - 1
ACAGUUUUCACUAGGCGGAAAAAUUGCCAAAGAAUUGGCAGAGUUGCCAUCAUCCUACGUGCGCGCAAGCCAAAGGGGAAAAUCCGUGGAAACUCUACUCUCUUCCGCAGAGUUGCAACA
...(((.(.(((..((((((.....(((((....)))))((((((.((((..((((...((.((....))))...))))......)))).))))))......))))))..))).).))). ( -41.60)
>consensus
__AGUUUUCACUAGGCGGAAAAGUUGCCAAAGAAUUGGCAGAGUUGCCAUCC_CCUUCGUG__CGCUAGGCAAGGGG_GGAAUUCGUGGAAACUC__CUCUCUUCCGCAGAGUUGCAGCA
..(((((((((..(((((.....(((((((....)))))))..))))).((((((((......(....)....))))))))....)))))))))............(((....))).... (-25.05 = -26.64 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:48 2006