Locus 6639

Sequence ID	3L_DroMel_CAF1
Location	17,671,423 – 17,671,520
Length	97
Max. P	0.997287

overview

Window 6

Location	17,671,423 – 17,671,520
Length	97
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	90.79
Mean single sequence MFE	-40.33
Consensus MFE	-35.71
Energy contribution	-36.02
Covariance contribution	0.31
Combinations/Pair	1.15
Mean z-score	-3.00
Structure conservation index	0.89
SVM decision value	2.83
SVM RNA-class probability	0.997287
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17671423 97 + 23771897
GGCGCCCGCUGCAACGCGGCGUAUGAGCGAUGUUCGGGCAUAAAUUGCGCAUACGCUGCGUUGCACAUCUUAAGCGCGUUAAAGCCUCUUGAACGCG
(((....)))(((((((((((((((.(((((............))))).)))))))))))))))..........((((((.(((...))).)))))) ( -43.30)
>DroSec_CAF1 47916 97 + 1
GGCGCCCGCUGCAACGCGGCGUAUGAGCGAUGUUCGGGCAUAAAUUGCGCAUACGCUGCGUUGCACAUCUUAAGCGCGUUAAAGCCUCUUGAACGCG
(((....)))(((((((((((((((.(((((............))))).)))))))))))))))..........((((((.(((...))).)))))) ( -43.30)
>DroSim_CAF1 48475 97 + 1
GGCGCCCGCUGCAACGCGGCGUUUGAGCGAUGUUCGGGCAUAAAUUGCGCAUACGCUGCGUUGCACAUCUUAAGCGCGUUAAAGCCUCUUGAACGCG
(((....)))((((((((((((.((.(((((............))))).)).))))))))))))..........((((((.(((...))).)))))) ( -39.40)
>DroEre_CAF1 43627 97 + 1
GGCGCCCGCUGCAACGCGGCGUAUGAGCGAUGUUCGGGCAUAAAUUGCGCAUACGCUGCGUUGCACAUCUUAAGCGCGCUAAAGCCUCUUGAACGCG
.(((...(.((((((((((((((((.(((((............))))).)))))))))))))))))...(((((.(.((....))).))))).))). ( -43.40)
>DroYak_CAF1 29162 97 + 1
GGCGCCCGCUGCAACGCGGCGUAUGAGCGAUGUUCGGGCAUAAAUUGCGCAUACGCUGCGUUGCACAUCUUAAGCGCGUUAAAGCCUCUUGAAGGCG
.((((....((((((((((((((((.(((((............))))).))))))))))))))))........))))......((((.....)))). ( -45.30)
>DroAna_CAF1 45470 86 + 1
GUUGC---UUGCAACGCGGCGUAUGAGCAAUGUUCUGGCAUAAAUUACGUAUACGCAGCGUUGCACAUCUUAAGAAUCUUAAAGCCG--------CG
((.((---(((((((((.(((((((....((((....))))........))))))).)))))))...((....))......)))).)--------). ( -27.30)
>consensus
GGCGCCCGCUGCAACGCGGCGUAUGAGCGAUGUUCGGGCAUAAAUUGCGCAUACGCUGCGUUGCACAUCUUAAGCGCGUUAAAGCCUCUUGAACGCG
(((...(((((((((((((((((((.(((((............))))).))))))))))))))))..........))).....)))........... (-35.71 = -36.02 +   0.31)

alignment

secondary structure

dotplot

Window 7

Location	17,671,423 – 17,671,520
Length	97
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	90.79
Mean single sequence MFE	-36.06
Consensus MFE	-31.17
Energy contribution	-32.62
Covariance contribution	1.45
Combinations/Pair	1.04
Mean z-score	-2.27
Structure conservation index	0.86
SVM decision value	1.43
SVM RNA-class probability	0.953299
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17671423 97 - 23771897
CGCGUUCAAGAGGCUUUAACGCGCUUAAGAUGUGCAACGCAGCGUAUGCGCAAUUUAUGCCCGAACAUCGCUCAUACGCCGCGUUGCAGCGGGCGCC
.((((((..(((((......)).)))......((((((((.(((((((.((..................)).))))))).))))))))..)))))). ( -38.47)
>DroSec_CAF1 47916 97 - 1
CGCGUUCAAGAGGCUUUAACGCGCUUAAGAUGUGCAACGCAGCGUAUGCGCAAUUUAUGCCCGAACAUCGCUCAUACGCCGCGUUGCAGCGGGCGCC
.((((((..(((((......)).)))......((((((((.(((((((.((..................)).))))))).))))))))..)))))). ( -38.47)
>DroSim_CAF1 48475 97 - 1
CGCGUUCAAGAGGCUUUAACGCGCUUAAGAUGUGCAACGCAGCGUAUGCGCAAUUUAUGCCCGAACAUCGCUCAAACGCCGCGUUGCAGCGGGCGCC
.((((((..(((((......)).)))......((((((((.((((.((.((..................)).)).)))).))))))))..)))))). ( -34.37)
>DroEre_CAF1 43627 97 - 1
CGCGUUCAAGAGGCUUUAGCGCGCUUAAGAUGUGCAACGCAGCGUAUGCGCAAUUUAUGCCCGAACAUCGCUCAUACGCCGCGUUGCAGCGGGCGCC
.((((((..(((((......)).)))......((((((((.(((((((.((..................)).))))))).))))))))..)))))). ( -38.47)
>DroYak_CAF1 29162 97 - 1
CGCCUUCAAGAGGCUUUAACGCGCUUAAGAUGUGCAACGCAGCGUAUGCGCAAUUUAUGCCCGAACAUCGCUCAUACGCCGCGUUGCAGCGGGCGCC
.(((((...)))))......(((((...(...((((((((.(((((((.((..................)).))))))).)))))))).).))))). ( -39.57)
>DroAna_CAF1 45470 86 - 1
CG--------CGGCUUUAAGAUUCUUAAGAUGUGCAACGCUGCGUAUACGUAAUUUAUGCCAGAACAUUGCUCAUACGCCGCGUUGCAA---GCAAC
.(--------(...((((((...))))))...((((((((.((((((..(((((............)))))..)))))).)))))))).---))... ( -27.00)
>consensus
CGCGUUCAAGAGGCUUUAACGCGCUUAAGAUGUGCAACGCAGCGUAUGCGCAAUUUAUGCCCGAACAUCGCUCAUACGCCGCGUUGCAGCGGGCGCC
.((((((...((((........))))......((((((((.(((((((.((..................)).))))))).))))))))..)))))). (-31.17 = -32.62 +   1.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:15 2006